Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007744.1 Hibiscus syriacus cultivar Beakdansim tig00110007_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4276731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 16
Found at i:2786573 original size:24 final size:23
Alignment explanation
Indices: 2786520--2786565 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
2786510 ATAAGTCTTT
2786520 AATATATATTTAATTGAATTAATTA
1 AATA-ATATTTAATTG-ATTAATTA
*
2786545 AATAATATTTTATTG-TTAATT
1 AATAATATTTAATTGATTAATT
2786566 CAGAATAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
AATAATATTTAATTGATTAATTA
Found at i:2790687 original size:29 final size:31
Alignment explanation
Indices: 2790622--2790687 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 31
2790612 CCACCTAGGT
* *
2790622 CTCTAAACTTTTCCCAACTTTACACTTTGGC
1 CTCTAAACTTTTCCAAAATTTACACTTTGGC
** *
2790653 AACTAAAC-TTT-CAAAATTTACATTTTGGC
1 CTCTAAACTTTTCCAAAATTTACACTTTGGC
2790682 CTCTAA
1 CTCTAA
2790688 CTAAATTGAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
29 19 0.68
30 3 0.11
31 6 0.21
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.38
Consensus pattern (31 bp):
CTCTAAACTTTTCCAAAATTTACACTTTGGC
Found at i:2801776 original size:165 final size:165
Alignment explanation
Indices: 2801577--2801924 Score: 475
Period size: 165 Copynumber: 2.1 Consensus size: 165
2801567 ATACACTTAG
* * * * ** *
2801577 TATGAATTTCCTAATTTTGCACATAAAGTGCCCATACAGAAATTCA-ACCACTTAGTATGAATTT
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACAGAAATTCATA-AACAAAGTATAAATTT
* * * *
2801641 CTTAAGTTTACACATAAAGTTCCCATACATATATTCATCCACTTAGTATGAATTTCTTAAGTTTA
65 CTTAAGTTTACAAATAAAGTGCCCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTA
*
2801706 CAAATAAAGT-GCTCATACGAAAATTCATAAACAAAT
130 CAAATAAAGTGGC-CAAACGAAAATTCATAAACAAAT
* *
2801742 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATAAACAAATTATAAATTTC
1 TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACAGAAATTCATAAACAAAGTATAAATTTC
* * *
2801807 TTAAGTTTATAAATAAAGTGCCCATACGGAAATTTATCCACTTAGTATGAATTTCTTAAGTTTAC
66 TTAAGTTTACAAATAAAGTGCCCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAC
* ** *
2801872 ACATAAAGTGGCCAAACGGGAATTTATAAACAAAT
131 AAATAAAGTGGCCAAACGAAAATTCATAAACAAAT
2801907 TATGAATTTCTTAAGTTT
1 TATGAATTTCTTAAGTTT
2801925 TTACACACTA
Statistics
Matches: 160, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
165 157 0.98
166 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (165 bp):
TATGAATTTCTTAAGTTTACACATAAAGTGCCCATACAGAAATTCATAAACAAAGTATAAATTTC
TTAAGTTTACAAATAAAGTGCCCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAC
AAATAAAGTGGCCAAACGAAAATTCATAAACAAAT
Found at i:2801896 original size:55 final size:55
Alignment explanation
Indices: 2801559--2801924 Score: 410
Period size: 55 Copynumber: 6.7 Consensus size: 55
2801549 CTGCCAGTAT
* * * *
2801559 GGAAATTTATACACTTAGTATGAATTTCCTAATTTTGCACATAAAGTGCCCATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAC
* *
2801614 AGAAATTCA-ACCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTTCCCATAC
1 GGAAATTCATA-CACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAC
** * * * *
2801669 ATATATTCATCCACTTAGTATGAATTTCTTAAGTTTACAAATAAAGTGCTCATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAC
* * ** *
2801724 GAAAATTCATAAACAAATTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAC
* ** * * * *
2801779 GGAAATTCATAAACAAATTATAAATTTCTTAAGTTTATAAATAAAGTGCCCATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAC
* * * *
2801834 GGAAATTTATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGGCCAAAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAC
* * * ** *
2801889 GGGAATTTATAAACAAATTATGAATTTCTTAAGTTT
1 GGAAATTCATACACTTAGTATGAATTTCTTAAGTTT
2801925 TTACACACTA
Statistics
Matches: 266, Mismatches: 43, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
54 1 0.00
55 265 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (55 bp):
GGAAATTCATACACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAC
Found at i:2802372 original size:20 final size:20
Alignment explanation
Indices: 2802347--2802402 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
2802337 TCTGTTAACA
*
2802347 ATAGTATCGATACCATCCTT
1 ATAGTATCGATACCACCCTT
2802367 ATAGTATCGATACTC-CCCTT
1 ATAGTATCGATAC-CACCCTT
* *
2802387 TTGGTATCGATACCAC
1 ATAGTATCGATACCAC
2802403 TTGAATCCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (20 bp):
ATAGTATCGATACCACCCTT
Found at i:2808553 original size:56 final size:55
Alignment explanation
Indices: 2808385--2808665 Score: 327
Period size: 56 Copynumber: 5.1 Consensus size: 55
2808375 AACAATATGA
* * * * * **
2808385 AAATTTATACACTTAGTATG-ATTTCCTAATTTTGCACATAAAGTGCCCATACAG
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTTTCCATACAG
* *
2808439 AAATTCATCCACTTAGTATGAATTTATTAAGTTTACACATAAAG-TGCTCATACAG
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTTTC-CATACAG
*
2808494 AAATTCATCCACTTAGTATGAATTTCTTAAAGTTTACACATAAAGTTTCCATACGG
1 AAATTCATCCACTTAGTATGAATTTCTT-AAGTTTACACATAAAGTTTCCATACAG
2808550 AAATTCATCCACTTAGTATGAATTTCTTAAAGTTTACACATAAAGTTTCCATAC-G
1 AAATTCATCCACTTAGTATGAATTTCTT-AAGTTTACACATAAAGTTTCCATACAG
* *** * ** *
2808605 AAAATTCAT-AAGGAAATTATGAATTTCTTAAGTTTACACATAAAGTACCCATATAG
1 -AAATTCATCCA-CTTAGTATGAATTTCTTAAGTTTACACATAAAGTTTCCATACAG
2808661 AAATT
1 AAATT
2808666 TAAACATAAA
Statistics
Matches: 201, Mismatches: 19, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
54 19 0.09
55 82 0.41
56 98 0.49
57 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (55 bp):
AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTTTCCATACAG
Found at i:2808638 original size:111 final size:110
Alignment explanation
Indices: 2808399--2808665 Score: 326
Period size: 111 Copynumber: 2.4 Consensus size: 110
2808389 TTATACACTT
* * *
2808399 AGTATG-ATTTCCTAATTTTGCACATAAAGTGCCCATACAGAAATTCATCCACTTAGTATGAATT
1 AGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACAGAAATTCATCCACTTAGTATGAATT
* **
2808463 TATTAAGTTTACACATAAAGTGCTCATACAGAAATTCATCCACTT
66 TATTAAGTTTACACATAAAGTGCTCATACAGAAATTCATCAACAA
** *
2808508 AGTATGAATTTCTTAAAGTTTACACATAAAGTTTCCATACGGAAATTCATCCACTTAGTATGAAT
1 AGTATGAATTTCTT-AAGTTTACACATAAAGTGCCCATACAGAAATTCATCCACTTAGTATGAAT
* * *
2808573 TTCTTAAAGTTTACACATAAAGT-TTCCATAC-GAAAATTCAT-AAGGAA
65 TTATT-AAGTTTACACATAAAGTGCT-CATACAG-AAATTCATCAA-CAA
* * *
2808620 ATTATGAATTTCTTAAGTTTACACATAAAGTACCCATATAGAAATT
1 AGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACAGAAATT
2808666 TAAACATAAA
Statistics
Matches: 135, Mismatches: 17, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
109 6 0.04
110 6 0.04
111 80 0.59
112 43 0.32
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (110 bp):
AGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACAGAAATTCATCCACTTAGTATGAATT
TATTAAGTTTACACATAAAGTGCTCATACAGAAATTCATCAACAA
Found at i:2808692 original size:27 final size:27
Alignment explanation
Indices: 2808637--2808689 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
2808627 ATTTCTTAAG
*
2808637 TTTACACATAAAGTACCCATATAGAAA
1 TTTAAACATAAAGTACCCATATAGAAA
*
2808664 TTTAAACATAAAGTGCCCATAT-GAAA
1 TTTAAACATAAAGTACCCATATAGAAA
2808690 ATTCATCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.26
Consensus pattern (27 bp):
TTTAAACATAAAGTACCCATATAGAAA
Found at i:2808763 original size:55 final size:55
Alignment explanation
Indices: 2808664--2808776 Score: 154
Period size: 55 Copynumber: 2.1 Consensus size: 55
2808654 CATATAGAAA
* ** **
2808664 TTTAAACATAAAGTGCCCATATGAAAATTCATCCACTTAGTATGAATTTCTTAAG
1 TTTAAACATAAAGTGCCCATACGAAAATTCATAAACAAAGTATGAATTTCTTAAG
* * *
2808719 TTTACACATAAAGTGCCCATACGGAAATTCATAAACAAATTATGAATTTCTTAAG
1 TTTAAACATAAAGTGCCCATACGAAAATTCATAAACAAAGTATGAATTTCTTAAG
2808774 TTT
1 TTT
2808777 TTGCACACTT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (55 bp):
TTTAAACATAAAGTGCCCATACGAAAATTCATAAACAAAGTATGAATTTCTTAAG
Found at i:2808828 original size:19 final size:18
Alignment explanation
Indices: 2808800--2808835 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2808790 GCCATTTGGT
*
2808800 AATCACCATACATATATC
1 AATCACCATACACATATC
2808818 AATCAACCATACACATAT
1 AATC-ACCATACACATAT
2808836 TACTATCGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (18 bp):
AATCACCATACACATATC
Found at i:2809296 original size:14 final size:14
Alignment explanation
Indices: 2809277--2809312 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2809267 AATCGGTATC
2809277 GATACTACCCAGCA
1 GATACTACCCAGCA
*
2809291 GATACTACCCAGTA
1 GATACTACCCAGCA
*
2809305 GATTCTAC
1 GATACTAC
2809313 TGCTTTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.33, C:0.31, G:0.14, T:0.22
Consensus pattern (14 bp):
GATACTACCCAGCA
Found at i:2814627 original size:30 final size:30
Alignment explanation
Indices: 2814593--2814652 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
2814583 GGTGTGGAGC
*
2814593 AAGAAAAATTGTTTTGGGGTGTCAAATTTA
1 AAGAAAAATTATTTTGGGGTGTCAAATTTA
*
2814623 AAGAAAATTTATTTTGGGGTGTCAAATTTA
1 AAGAAAAATTATTTTGGGGTGTCAAATTTA
2814653 GAAATTGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (30 bp):
AAGAAAAATTATTTTGGGGTGTCAAATTTA
Found at i:2814754 original size:32 final size:33
Alignment explanation
Indices: 2814710--2814781 Score: 112
Period size: 32 Copynumber: 2.2 Consensus size: 33
2814700 AGGTGCAATT
2814710 TATTTTAAGGGTGCTAACATTA-TTTT-AAAAA
1 TATTTTAAGGGTGCTAACATTATTTTTGAAAAA
*
2814741 TATGTTTAAGGGTGCTAATATTATTTTTGAAAAA
1 TAT-TTTAAGGGTGCTAACATTATTTTTGAAAAA
2814775 TATTTTA
1 TATTTTA
2814782 TATTAAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
31 3 0.08
32 18 0.49
33 8 0.22
34 8 0.22
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (33 bp):
TATTTTAAGGGTGCTAACATTATTTTTGAAAAA
Found at i:2814795 original size:2 final size:2
Alignment explanation
Indices: 2814788--2814826 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2814778 TTTATATTAA
2814788 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2814827 ATAAATTCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2815308 original size:12 final size:12
Alignment explanation
Indices: 2815291--2815341 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
2815281 ATGACATGAT
2815291 AAATAAATAAAC
1 AAATAAATAAAC
*
2815303 AAATAAACAAAC
1 AAATAAATAAAC
2815315 AAA-AAATCAAGATC
1 AAATAAAT-AA-A-C
2815329 ATAATAAATAAAC
1 A-AATAAATAAAC
2815342 GTGATACATG
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
11 3 0.09
12 16 0.50
13 2 0.06
14 3 0.09
15 4 0.12
16 4 0.12
ACGTcount: A:0.71, C:0.12, G:0.02, T:0.16
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:2815851 original size:12 final size:12
Alignment explanation
Indices: 2815829--2815859 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
2815819 TTAGCTTACA
2815829 TATGTTATATCAT
1 TATG-TATATCAT
2815842 TATGTATATCAT
1 TATGTATATCAT
2815854 TATGTA
1 TATGTA
2815860 CTTAGCTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (12 bp):
TATGTATATCAT
Found at i:2816548 original size:20 final size:19
Alignment explanation
Indices: 2816498--2816548 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
2816488 CGGCCAAGAG
* *
2816498 CATGTATCTTCATTAAAGT
1 CATGTATTTTCATTAAAAT
* *
2816517 CTTGTTTTTTCATTAAAAAT
1 CATGTATTTTCATT-AAAAT
2816537 CATGTATTTTCA
1 CATGTATTTTCA
2816549 AAAGGATTTC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49
Consensus pattern (19 bp):
CATGTATTTTCATTAAAAT
Found at i:2823590 original size:15 final size:15
Alignment explanation
Indices: 2823570--2823599 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2823560 AGGGGGAGAA
2823570 AGTGTTAAAGTAAGG
1 AGTGTTAAAGTAAGG
2823585 AGTGTTAAAGTAAGG
1 AGTGTTAAAGTAAGG
2823600 GGGAGTAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.27
Consensus pattern (15 bp):
AGTGTTAAAGTAAGG
Found at i:2823894 original size:20 final size:20
Alignment explanation
Indices: 2823856--2823898 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
2823846 GTTTTAATCT
*
2823856 AAATAATTTCAAACGATTTAC
1 AAATAATTTCAAACCATTT-C
*
2823877 AAAT-ATTTCGAACCATTTC
1 AAATAATTTCAAACCATTTC
2823896 AAA
1 AAA
2823899 GCCAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATAATTTCAAACCATTTC
Found at i:2827245 original size:92 final size:92
Alignment explanation
Indices: 2827088--2827274 Score: 374
Period size: 92 Copynumber: 2.0 Consensus size: 92
2827078 AGTTGACGTC
2827088 AAATCTAACCCTGAGAAAATAAAATAGAAAATTTCCAAAGCACCAATACAGAATATCGAAAATAT
1 AAATCTAACCCTGAGAAAATAAAATAGAAAATTTCCAAAGCACCAATACAGAATATCGAAAATAT
2827153 GCCAAAAGACATAGAAAAGAGTGTCAT
66 GCCAAAAGACATAGAAAAGAGTGTCAT
2827180 AAATCTAACCCTGAGAAAATAAAATAGAAAATTTCCAAAGCACCAATACAGAATATCGAAAATAT
1 AAATCTAACCCTGAGAAAATAAAATAGAAAATTTCCAAAGCACCAATACAGAATATCGAAAATAT
2827245 GCCAAAAGACATAGAAAAGAGTGTCAT
66 GCCAAAAGACATAGAAAAGAGTGTCAT
2827272 AAA
1 AAA
2827275 GGCAGAGAAA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 95 1.00
ACGTcount: A:0.53, C:0.16, G:0.13, T:0.18
Consensus pattern (92 bp):
AAATCTAACCCTGAGAAAATAAAATAGAAAATTTCCAAAGCACCAATACAGAATATCGAAAATAT
GCCAAAAGACATAGAAAAGAGTGTCAT
Found at i:2830059 original size:27 final size:28
Alignment explanation
Indices: 2829962--2830055 Score: 118
Period size: 28 Copynumber: 3.4 Consensus size: 28
2829952 CATATCCTCC
* * *
2829962 ATATCATACTTCAATGGAGAGTCGACCA
1 ATATCACACTTCAATGGAGAGTCAACCG
* *
2829990 ATATCACACTTCAATGGAGAATCAATCG
1 ATATCACACTTCAATGGAGAGTCAACCG
*
2830018 ATATCACACTTTAATGGA-AGTCAACCG
1 ATATCACACTTCAATGGAGAGTCAACCG
*
2830045 ATATCATACTT
1 ATATCACACTT
2830056 TAATAGACAG
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
27 17 0.30
28 40 0.70
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (28 bp):
ATATCACACTTCAATGGAGAGTCAACCG
Found at i:2835764 original size:19 final size:19
Alignment explanation
Indices: 2835740--2835777 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2835730 ACATAGAATG
2835740 TAAGTAGTGCATCGATGCA
1 TAAGTAGTGCATCGATGCA
*
2835759 TAAGTAGTTCATCGATGCA
1 TAAGTAGTGCATCGATGCA
2835778 CCCCCTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (19 bp):
TAAGTAGTGCATCGATGCA
Found at i:2837442 original size:23 final size:23
Alignment explanation
Indices: 2837416--2837501 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
2837406 GACATTATAT
2837416 GGCACTACGGTGCATTTCTATGC
1 GGCACTACGGTGCATTTCTATGC
* * * *
2837439 GGCACTTCGGTGCAATTCTACGT
1 GGCACTACGGTGCATTTCTATGC
* *
2837462 GGCACTATGGTACATTTCTATGC
1 GGCACTACGGTGCATTTCTATGC
*
2837485 GGCACTTCGGTGCATTT
1 GGCACTACGGTGCATTT
2837502 ATACGAGCTG
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTATGC
Found at i:2837848 original size:23 final size:23
Alignment explanation
Indices: 2837822--2837866 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
2837812 TATGTTATAT
* *
2837822 AAAAAGGTGTGTGATTTTGTATG
1 AAAAAGGTATATGATTTTGTATG
* *
2837845 AAAATGTTATATGATTTTGTAT
1 AAAAAGGTATATGATTTTGTAT
2837867 AATAAGTTAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (23 bp):
AAAAAGGTATATGATTTTGTATG
Found at i:2841324 original size:67 final size:66
Alignment explanation
Indices: 2841210--2841475 Score: 270
Period size: 67 Copynumber: 4.0 Consensus size: 66
2841200 TATTGTTTTT
* * * * *
2841210 ATCCCTTGAGATAGTTTCTCTTGAAACAAATTTTGTCTCGCTTAAGATATTTTCTCTTGAAACAC
1 ATCCTTTGAGATAGTTTCTCTTGAAACAAATTTTGTCTCACTCAAGATAATTTCTCTTAAAACAC
2841275 A
66 A
* * * * * *
2841276 ATCCTTTGAGATAATTTATGTTGAAACCAAATTTTGT-TCCACTCAAGATAGTTTCCCTTTAAAC
1 ATCCTTTGAGATAGTTTCTCTTGAAA-CAAATTTTGTCT-CACTCAAGATAATTTCTCTTAAAAC
2841340 ACA
64 ACA
* ** * * * *
2841343 AACCTTTGAGATCTTTTGTTTTGAAACCAAATTTTGTCTCACTCGAGACAATTTCTCTTAAAACA
1 ATCCTTTGAGATAGTTTCTCTTGAAA-CAAATTTTGTCTCACTCAAGATAATTTCTCTTAAAACA
2841408 CA
65 CA
* * *
2841410 ATCCTTTGAGATTGTTTCTCTTGAAACAAATTTTATCTCACT-AGAGATAGTTTC-CATTAAAA-
1 ATCCTTTGAGATAGTTTCTCTTGAAACAAATTTTGTCTCACTCA-AGATAATTTCTC-TTAAAAC
2841472 ACA
64 ACA
2841475 A
1 A
2841476 AACCAAAAGT
Statistics
Matches: 167, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
65 5 0.03
66 52 0.31
67 109 0.65
68 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (66 bp):
ATCCTTTGAGATAGTTTCTCTTGAAACAAATTTTGTCTCACTCAAGATAATTTCTCTTAAAACAC
A
Found at i:2841474 original size:134 final size:132
Alignment explanation
Indices: 2841230--2841479 Score: 317
Period size: 134 Copynumber: 1.9 Consensus size: 132
2841220 ATAGTTTCTC
* * * * *
2841230 TTGAAACAAATTTTGTCTCGCTTAAGATATTTTCTCTTGAAACACAATCCTTTGAGATAATTTAT
1 TTGAAACAAATTTTGTCTCACTCAAGACAATTTCTCTTAAAACACAATCCTTTGAGATAATTTAT
* * * *
2841295 GTTGAAACCAAATTTTGTTCCACTCAAGATAGTTTCCCTTTAAACACAAACCTTTGAGATCTTTT
66 CTTGAAACCAAATTTTATTCCACTCAAGATAGTTTCCATTAAAACA-AAACCTTTGAGATCTTTT
2841360 GTT
130 GTT
* ** *
2841363 TTGAAACCAAATTTTGTCTCACTCGAGACAATTTCTCTTAAAACACAATCCTTTGAGATTGTTTC
1 TTGAAA-CAAATTTTGTCTCACTCAAGACAATTTCTCTTAAAACACAATCCTTTGAGATAATTTA
2841428 TCTTGAAA-CAAATTTTA-TCTCACT-AGAGATAGTTTCCATTAAAAACAAAACC
65 TCTTGAAACCAAATTTTATTC-CACTCA-AGATAGTTTCCATT-AAAACAAAACC
2841480 AAAAGTTGTT
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
132 3 0.03
133 36 0.36
134 61 0.61
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.37
Consensus pattern (132 bp):
TTGAAACAAATTTTGTCTCACTCAAGACAATTTCTCTTAAAACACAATCCTTTGAGATAATTTAT
CTTGAAACCAAATTTTATTCCACTCAAGATAGTTTCCATTAAAACAAAACCTTTGAGATCTTTTG
TT
Found at i:2841961 original size:234 final size:234
Alignment explanation
Indices: 2841552--2842019 Score: 936
Period size: 234 Copynumber: 2.0 Consensus size: 234
2841542 ACCTTTGGGA
2841552 TCGTTTCTTTTGAAACGTTTTGTCTCACTCAAGACAGTTTCACTTGAAATTCAATTTCCATTAAA
1 TCGTTTCTTTTGAAACGTTTTGTCTCACTCAAGACAGTTTCACTTGAAATTCAATTTCCATTAAA
2841617 ACAAAACTTTATCTCACTTGAGATTGTTTCTCTTGAAATAAAATTTAGTCTCGCTCGGGACAGTT
66 ACAAAACTTTATCTCACTTGAGATTGTTTCTCTTGAAATAAAATTTAGTCTCGCTCGGGACAGTT
2841682 TCCTTTGAAATACAAATATTGAAATTATTTCCCTTGAAATAGAAGTTTCATCTCCCTTAAGATAA
131 TCCTTTGAAATACAAATATTGAAATTATTTCCCTTGAAATAGAAGTTTCATCTCCCTTAAGATAA
2841747 GAAATATTTTTAGTCTCTCACGAGACTACACCTGATTTC
196 GAAATATTTTTAGTCTCTCACGAGACTACACCTGATTTC
2841786 TCGTTTCTTTTGAAACGTTTTGTCTCACTCAAGACAGTTTCACTTGAAATTCAATTTCCATTAAA
1 TCGTTTCTTTTGAAACGTTTTGTCTCACTCAAGACAGTTTCACTTGAAATTCAATTTCCATTAAA
2841851 ACAAAACTTTATCTCACTTGAGATTGTTTCTCTTGAAATAAAATTTAGTCTCGCTCGGGACAGTT
66 ACAAAACTTTATCTCACTTGAGATTGTTTCTCTTGAAATAAAATTTAGTCTCGCTCGGGACAGTT
2841916 TCCTTTGAAATACAAATATTGAAATTATTTCCCTTGAAATAGAAGTTTCATCTCCCTTAAGATAA
131 TCCTTTGAAATACAAATATTGAAATTATTTCCCTTGAAATAGAAGTTTCATCTCCCTTAAGATAA
2841981 GAAATATTTTTAGTCTCTCACGAGACTACACCTGATTTC
196 GAAATATTTTTAGTCTCTCACGAGACTACACCTGATTTC
2842020 GAAGCAGAAG
Statistics
Matches: 234, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
234 234 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (234 bp):
TCGTTTCTTTTGAAACGTTTTGTCTCACTCAAGACAGTTTCACTTGAAATTCAATTTCCATTAAA
ACAAAACTTTATCTCACTTGAGATTGTTTCTCTTGAAATAAAATTTAGTCTCGCTCGGGACAGTT
TCCTTTGAAATACAAATATTGAAATTATTTCCCTTGAAATAGAAGTTTCATCTCCCTTAAGATAA
GAAATATTTTTAGTCTCTCACGAGACTACACCTGATTTC
Found at i:2843944 original size:21 final size:20
Alignment explanation
Indices: 2843898--2843953 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
2843888 CAATAGGTTT
*
2843898 GGGATTGATCCTTTAAACAA
1 GGGATCGATCCTTTAAACAA
* **
2843918 GCGATCGATCCTTTCACCCAA
1 GGGATCGATCCTTT-AAACAA
2843939 GGGATCGATCTCTTT
1 GGGATCGATC-CTTT
2843954 TTTGGGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 12 0.41
21 13 0.45
22 4 0.14
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (20 bp):
GGGATCGATCCTTTAAACAA
Found at i:2844430 original size:16 final size:16
Alignment explanation
Indices: 2844411--2844443 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2844401 TCTCTTGTTG
2844411 AAGAATCAAACCTAGA
1 AAGAATCAAACCTAGA
2844427 AAGAATCAAACCTAGA
1 AAGAATCAAACCTAGA
2844443 A
1 A
2844444 TCAACATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.18, G:0.12, T:0.12
Consensus pattern (16 bp):
AAGAATCAAACCTAGA
Found at i:2847991 original size:16 final size:16
Alignment explanation
Indices: 2847970--2848005 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
2847960 GTCGTCGCAA
2847970 GTCTGTCATTGTTATG
1 GTCTGTCATTGTTATG
2847986 GTCTGTCATTGTTATG
1 GTCTGTCATTGTTATG
2848002 GTCT
1 GTCT
2848006 TCTTTTCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.14, G:0.25, T:0.50
Consensus pattern (16 bp):
GTCTGTCATTGTTATG
Found at i:2848757 original size:3 final size:3
Alignment explanation
Indices: 2848749--2848815 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
2848739 AGAACAATTA
2848749 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2848796 ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
2848816 ATACTTTTTG
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2854317 original size:21 final size:21
Alignment explanation
Indices: 2854293--2854334 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2854283 AAAGCGTACG
2854293 GATGATAGTGAATAAATAACC
1 GATGATAGTGAATAAATAACC
2854314 GATGATAGTGAATAAATAACC
1 GATGATAGTGAATAAATAACC
2854335 AATACAGGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.24
Consensus pattern (21 bp):
GATGATAGTGAATAAATAACC
Found at i:2855689 original size:17 final size:17
Alignment explanation
Indices: 2855667--2855719 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
2855657 AATTAAGAGT
2855667 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
*
2855684 TAGTTTGATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
2855701 CAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
2855718 TA
1 TA
2855720 AATGCATGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:2855796 original size:17 final size:17
Alignment explanation
Indices: 2855748--2855817 Score: 59
Period size: 17 Copynumber: 4.1 Consensus size: 17
2855738 TTTATTAAAC
* *
2855748 AAATAGATGCATAAATG
1 AAATACATGCTTAAATG
* * * *
2855765 AACTACTTCCCTAAATG
1 AAATACATGCTTAAATG
2855782 AAATACATGCTTAAATG
1 AAATACATGCTTAAATG
* * *
2855799 CAATGCATGCTTTAATG
1 AAATACATGCTTAAATG
2855816 AA
1 AA
2855818 CAACATACTT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (17 bp):
AAATACATGCTTAAATG
Found at i:2866845 original size:15 final size:16
Alignment explanation
Indices: 2866815--2866870 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
2866805 AAGAAAACAT
2866815 AAGAAATAAGAGAAGA
1 AAGAAATAAGAGAAGA
*
2866831 AAGAAATGAAGAAGAA-T
1 AAGAAAT-AAG-AGAAGA
2866848 AAGAAGA-AAGA-AAGA
1 AAGAA-ATAAGAGAAGA
2866863 AAGAAATA
1 AAGAAATA
2866871 CAAAAATAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
14 3 0.09
15 7 0.21
16 10 0.30
17 8 0.24
18 5 0.15
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (16 bp):
AAGAAATAAGAGAAGA
Found at i:2868131 original size:18 final size:18
Alignment explanation
Indices: 2868110--2868161 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
2868100 ATATATAATA
2868110 TATTATTAATTATTTTTT
1 TATTATTAATTATTTTTT
*
2868128 TATT-TAAATATATTTTTT
1 TATTATTAAT-TATTTTTT
2868146 TATTTATT-ATTATTTT
1 TA-TTATTAATTATTTT
2868162 ATAATTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 4 0.14
18 20 0.69
19 4 0.14
20 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTATTAATTATTTTTT
Found at i:2868156 original size:15 final size:15
Alignment explanation
Indices: 2868112--2868163 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
2868102 ATATAATATA
*
2868112 TTATTAATTATTTTT
1 TTATTTATTATTTTT
2868127 TTATTTAAATATATTTTT
1 TTATTT--AT-TATTTTT
*
2868145 TTATTTATTATTATT
1 TTATTTATTATTTTT
2868160 TTAT
1 TTAT
2868164 AATTTTTCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 15 0.47
16 2 0.06
17 2 0.06
18 13 0.41
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTATTATTTTT
Found at i:2868814 original size:24 final size:24
Alignment explanation
Indices: 2868787--2868832 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
2868777 TGGCATACAT
*
2868787 ACCCAAGTTGATGCATCCTCATCC
1 ACCCAAATTGATGCATCCTCATCC
2868811 ACCCAAATTGATGCATCCTCAT
1 ACCCAAATTGATGCATCCTCAT
2868833 GCACTCATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.35, G:0.11, T:0.26
Consensus pattern (24 bp):
ACCCAAATTGATGCATCCTCATCC
Found at i:2869267 original size:68 final size:69
Alignment explanation
Indices: 2869189--2869322 Score: 198
Period size: 68 Copynumber: 2.0 Consensus size: 69
2869179 TAACTTACAC
* * *
2869189 TCAATCAAATAAAATGTGGAAATCCATTACACTAATTCAAAAA-TAAATAGGAAAAACCAAACAT
1 TCAATCAAATAAAATATGGAAATCCATCACACTAATTCAAAAACTAAATAAGAAAAACCAAACAT
2869253 TCAT
66 TCAT
* * * *
2869257 TCAATCAAATAAAATATGGAAATCTATCACACTCATTCAAAAACTAAATAAGATAAACCAAGCAT
1 TCAATCAAATAAAATATGGAAATCCATCACACTAATTCAAAAACTAAATAAGAAAAACCAAACAT
2869322 T
66 T
2869323 TAGATTAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
68 39 0.67
69 19 0.33
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (69 bp):
TCAATCAAATAAAATATGGAAATCCATCACACTAATTCAAAAACTAAATAAGAAAAACCAAACAT
TCAT
Found at i:2869293 original size:36 final size:36
Alignment explanation
Indices: 2869189--2869296 Score: 109
Period size: 36 Copynumber: 3.1 Consensus size: 36
2869179 TAACTTACAC
* * *
2869189 TCAATCAAATAAAATGTGGAAATCCATTACACTAAT
1 TCAATCAAATAAAATATGGAAATCCATAACACTCAT
* *
2869225 TCAA--AAAT-AAATA-GGAAAAACCA-AACATTCAT
1 TCAATCAAATAAAATATGG-AAATCCATAACACTCAT
* *
2869257 TCAATCAAATAAAATATGGAAATCTATCACACTCAT
1 TCAATCAAATAAAATATGGAAATCCATAACACTCAT
2869293 TCAA
1 TCAA
2869297 AAACTAAATA
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
32 12 0.21
33 10 0.18
34 8 0.14
35 10 0.18
36 17 0.30
ACGTcount: A:0.51, C:0.18, G:0.06, T:0.25
Consensus pattern (36 bp):
TCAATCAAATAAAATATGGAAATCCATAACACTCAT
Found at i:2869397 original size:6 final size:6
Alignment explanation
Indices: 2869388--2869435 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
2869378 AATATTCATT
*
2869388 CAAATA CAAATA AAAATA CAAATA CAAATA CAAATA CAAATA CAAATA
1 CAAATA CAAATA CAAATA CAAATA CAAATA CAAATA CAAATA CAAATA
2869436 TGATTACTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.17
Consensus pattern (6 bp):
CAAATA
Found at i:2872371 original size:14 final size:15
Alignment explanation
Indices: 2872354--2872389 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
2872344 CTATAAAAAC
2872354 ATAATATTAAAT-AA
1 ATAATATTAAATAAA
*
2872368 ATAATATTTAATAAA
1 ATAATATTAAATAAA
2872383 ATAATAT
1 ATAATAT
2872390 GAGACAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATATTAAATAAA
Found at i:2879227 original size:18 final size:17
Alignment explanation
Indices: 2879202--2879235 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2879192 ATCAAAATAA
2879202 TTAAAATAAATAAAATT
1 TTAAAATAAATAAAATT
*
2879219 TTAATAATATATAAAAT
1 TTAA-AATAAATAAAAT
2879236 AATTTATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAATAAATAAAATT
Found at i:2879304 original size:23 final size:24
Alignment explanation
Indices: 2879273--2879319 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2879263 TATAATATAA
*
2879273 TATT-AAAAAATTAATATTTAATT
1 TATTAAAAAAATTAATATTAAATT
*
2879296 TATTTAAAAAATTAATATTAAATT
1 TATTAAAAAAATTAATATTAAATT
2879320 AATATCTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TATTAAAAAAATTAATATTAAATT
Found at i:2879320 original size:11 final size:11
Alignment explanation
Indices: 2879304--2879408 Score: 59
Period size: 11 Copynumber: 8.6 Consensus size: 11
2879294 TTTATTTAAA
2879304 AAATTAATATT
1 AAATTAATATT
2879315 AAATTAATATCT
1 AAATTAATAT-T
2879327 ATAATATAATATT
1 A-AAT-TAATATT
2879340 AAAATATTAATATT
1 --AA-ATTAATATT
* *
2879354 TAATTTAT-TT
1 AAATTAATATT
2879364 AAAAAATTAATATT
1 ---AAATTAATATT
* *
2879378 AAAATTAAAATC
1 -AAATTAATATT
*
2879390 AAATATAATATA
1 AAAT-TAATATT
2879402 AAATTAA
1 AAATTAA
2879409 ATAAAACCTC
Statistics
Matches: 75, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
10 2 0.03
11 22 0.29
12 22 0.29
13 10 0.13
14 16 0.21
15 3 0.04
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (11 bp):
AAATTAATATT
Found at i:2879337 original size:63 final size:63
Alignment explanation
Indices: 2879246--2879404 Score: 252
Period size: 63 Copynumber: 2.5 Consensus size: 63
2879236 AATTTATATG
*
2879246 ATATAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTA
1 ATATTAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTA
*
2879310 ATATTAAATTAATATCTATAATATAATATTAAAATATTAATATTTAATTTATTTAAAAAATTA
1 ATATTAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTA
*
2879373 ATATTAAAATTAAAATC-A-AATATAATA-TAAAA
1 ATATT-AAATTAATATCTATAATATAATATTAAAA
2879405 TTAAATAAAA
Statistics
Matches: 91, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
61 5 0.05
62 9 0.10
63 58 0.64
64 19 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (63 bp):
ATATTAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTA
Found at i:2879349 original size:39 final size:35
Alignment explanation
Indices: 2879280--2879385 Score: 100
Period size: 35 Copynumber: 3.2 Consensus size: 35
2879270 TAATATTAAA
*
2879280 AAATTAATATTTAATTTATTTAAAAAATTAATATT
1 AAATTAATATTTAATTAATTTAAAAAATTAATATT
* * *
2879315 AAATTAATATCT-A-TAA--TATAATATTAA-A--
1 AAATTAATATTTAATTAATTTAAAAAATTAATATT
* *
2879343 ATATTAATATTTAATTTATTTAAAAAATTAATATT
1 AAATTAATATTTAATTAATTTAAAAAATTAATATT
2879378 AAAATTAA
1 -AAATTAA
2879386 AATCAAATAT
Statistics
Matches: 53, Mismatches: 10, Indels: 15
0.68 0.13 0.19
Matches are distributed among these distances:
28 10 0.19
29 1 0.02
30 3 0.06
31 9 0.17
32 9 0.17
33 3 0.06
34 1 0.02
35 11 0.21
36 6 0.11
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (35 bp):
AAATTAATATTTAATTAATTTAAAAAATTAATATT
Found at i:2879372 original size:24 final size:27
Alignment explanation
Indices: 2879315--2879378 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 27
2879305 AATTAATATT
2879315 AAATTAATATCTATAATATAATATTAAA
1 AAATTAATAT-TATAATATAATATTAAA
* *
2879343 ATATTAATATT-TAAT-TTAT-TTAAA
1 AAATTAATATTATAATATAATATTAAA
2879367 AAATTAATATTA
1 AAATTAATATTA
2879379 AAATTAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 15 0.47
25 3 0.09
26 4 0.12
27 1 0.03
28 9 0.28
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
AAATTAATATTATAATATAATATTAAA
Found at i:2879866 original size:28 final size:28
Alignment explanation
Indices: 2879825--2879879 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
2879815 TGGGTAAATT
*
2879825 ATTTATTTAGTCAT-TCATCTATTATTTA
1 ATTTATTTAGTCATGT-AACTATTATTTA
* *
2879853 ATTTTTTTGGTCATGTAACTATTATTT
1 ATTTATTTAGTCATGTAACTATTATTT
2879880 TTTCAAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.58
Consensus pattern (28 bp):
ATTTATTTAGTCATGTAACTATTATTTA
Found at i:2883924 original size:36 final size:36
Alignment explanation
Indices: 2883863--2884051 Score: 236
Period size: 36 Copynumber: 5.2 Consensus size: 36
2883853 TGTTCATTCA
* * * *
2883863 CCGATTCAAGTCGAACGGAGGGAAGCATTGGCATTT
1 CCGATTCAAATCGAACGGAAGGAAGCATCGGCACTT
* * * *
2883899 CCGATTCAAATTGAAAGGAATGAAGCATCGACACTT
1 CCGATTCAAATCGAACGGAAGGAAGCATCGGCACTT
*
2883935 CCGATTCAAAGT-GAACGGAAGGAAGCATCGGCACCT
1 CCGATTCAAA-TCGAACGGAAGGAAGCATCGGCACTT
* * *
2883971 CCGATTCAAGTCGAACGGAGGGAAGTATCGGCACTT
1 CCGATTCAAATCGAACGGAAGGAAGCATCGGCACTT
* *
2884007 CCGATTCAAATCGAACGGAAGGAAGCATCGACGCTT
1 CCGATTCAAATCGAACGGAAGGAAGCATCGGCACTT
2884043 CCGATTCAA
1 CCGATTCAA
2884052 GTGTTCATTT
Statistics
Matches: 130, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
35 1 0.01
36 128 0.98
37 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (36 bp):
CCGATTCAAATCGAACGGAAGGAAGCATCGGCACTT
Found at i:2886850 original size:216 final size:215
Alignment explanation
Indices: 2886600--2887723 Score: 1782
Period size: 216 Copynumber: 5.3 Consensus size: 215
2886590 ATTTAAGAAT
2886600 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACATATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACA-ATTGATGAG
* * *
2886665 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAACAAAGTACTAAAGTATAT
65 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * *
2886730 CCATTTAAAAATTTAGGGGCCAATTAAAAAATAGAATTAAATAAAAAGTATGGATCAATTTCAGA
130 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGA
2886795 TGCAAATAAAATTTGGAGGAC
195 TGCAAATAAAATTTGGAGGAC
*
2886816 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAATACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACA-ATTGATGAG
*
2886881 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAAGTATAC
65 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* *
2886946 CCATTTAAAAATTTATGGGCCAATTAAAAAATATAATTAAGTAAAAAGTATGGATCAATTTCAGA
130 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGA
2887011 TGCAAATAAAATTTGGAGGAC
195 TGCAAATAAAATTTGGAGGAC
*
2887032 TAAATTAAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAA---A--AGG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAATTGATGAGG
*
2887092 GATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACC
66 GATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACC
2887157 CATTTAAAAAGTTATGGGCCAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGAT
131 CATTTAAAAAGTTATGGGCCAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGAT
2887222 GCAAATAAAATTTGGAGGAC
196 GCAAATAAAATTTGGAGGAC
* * *
2887242 TAAATTGAATAAATATGAAATTACAAATGAAAATTTAAATTAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACA-ATTGATGAG
* * * *
2887307 GGATTAAATCGAAATAAATTTATATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATAC
65 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * * *
2887372 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
130 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGA
*
2887437 TGCAAATAAAAATTGGAGGAC
195 TGCAAATAAAATTTGGAGGAC
* * *
2887458 TAAATTGAACAAATATAAAATTACAAATAAAAATTTAAATAAACTAAACAACACAA---A--AGT
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAATTGATGAGG
* * * *
2887518 GATCAAATAGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAATGTACTAAATTATACT
66 GATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACC
* * * * * *
2887583 TATTTAAAAAGTTATGGGCCAATTAATAAACAGAAATAAGTAATAAGTATGGCTCAATTTCAGAT
131 CATTTAAAAAGTTATGGGCCAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGAT
*
2887648 GCAAATAAAATGTGGAGGAC
196 GCAAATAAAATTTGGAGGAC
* * *
2887668 TAAAGTGAACAACTATAAAATTACAAATAAAAATTTAAATAAATTAAACAACACAA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAA
2887724 AAGGGATCAA
Statistics
Matches: 853, Mismatches: 49, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
210 390 0.46
211 1 0.00
212 2 0.00
214 1 0.00
215 2 0.00
216 457 0.54
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.28
Consensus pattern (215 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAATTGATGAGG
GATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACC
CATTTAAAAAGTTATGGGCCAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGAT
GCAAATAAAATTTGGAGGAC
Found at i:2887146 original size:426 final size:425
Alignment explanation
Indices: 2886600--2887722 Score: 1814
Period size: 426 Copynumber: 2.6 Consensus size: 425
2886590 ATTTAAGAAT
2886600 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACATATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACA-A---A--AG
* *
2886665 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAACAAAGTACTAAAGTATAT
60 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATA-
* * *
2886730 CCATTTAAAAATTTAGGGGCCAATTAAAAAATAGAATTAAATAAAAAGTATGGATCAATTTCAGA
124 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGA
2886795 TGCAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAAT
189 TGCAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAAT
* *
2886860 TAAACAATACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATA
254 TAAACAACACACATTGATGAGGGATCAAATCGAAATAAATTTAAATTGTGAGGTTGAAATTAATA
* * *
2886925 CAAAAAAGTACTAAAGTATACCCATTTAAAAATTTATGGGCCAATTAAAAAATATAATTAAGTAA
319 CAAAAAAGTACTAAAGTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAA
*
2886990 AAAGTATGGATCAATTTCAGATGCAAATAAAATTTGGAGGAC
384 AAAGTATGGATCAATTTCAGATGCAAATAAAAATTGGAGGAC
*
2887032 TAAATTAAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
*
2887097 AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
66 AATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATA-CCATTT
2887162 AAAAAGTTATGGGCCAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGATGCAAA
130 AAAAAGTTATGGGCCAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGATGCAAA
* * *
2887227 TAAAATTTGGAGGACTAAATTGAATAAATATGAAATTACAAATGAAAATTTAAATTAATTAAACA
195 TAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACA
* * *
2887292 ACACACATTGATGAGGGATTAAATCGAAATAAATTTATATTGTGATGTTGAAATTAATACAAAAA
260 ACACACATTGATGAGGGATCAAATCGAAATAAATTTAAATTGTGAGGTTGAAATTAATACAAAAA
* * *
2887357 AGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTA
325 AGTACTAAAGTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAAAAAGTA
*
2887422 TGGGTCAATTTCAGATGCAAATAAAAATTGGAGGAC
390 TGGATCAATTTCAGATGCAAATAAAAATTGGAGGAC
* * *
2887458 TAAATTGAACAAATATAAAATTACAAATAAAAATTTAAATAAACTAAACAACACAAAAGTGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
* * * *
2887523 AATAGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAATGTACTAAATTATACTTATTT
66 AATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC-CATTT
* * * * *
2887588 AAAAAGTTATGGGCCAATTAATAAACAGAAATAAGTAATAAGTATGGCTCAATTTCAGATGCAAA
130 AAAAAGTTATGGGCCAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGATGCAAA
* * * *
2887653 TAAAATGTGGAGGACTAAAGTGAACAACTATAAAATTACAAATAAAAATTTAAATAAATTAAACA
195 TAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACA
2887718 ACACA
260 ACACA
2887723 AAAGGGATCA
Statistics
Matches: 645, Mismatches: 45, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
425 1 0.00
426 588 0.91
428 1 0.00
431 1 0.00
432 54 0.08
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.28
Consensus pattern (425 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
AATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCATTTA
AAAAGTTATGGGCCAATTAAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGATGCAAAT
AAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAA
CACACATTGATGAGGGATCAAATCGAAATAAATTTAAATTGTGAGGTTGAAATTAATACAAAAAA
GTACTAAAGTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAAAAAGTAT
GGATCAATTTCAGATGCAAATAAAAATTGGAGGAC
Found at i:2887876 original size:24 final size:24
Alignment explanation
Indices: 2887849--2887897 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2887839 AAATATATAG
* *
2887849 TTTATATATAAAGTATAGTTGACA
1 TTTACATATAAACTATAGTTGACA
* *
2887873 TTTACATATGAACTATAGTTTACA
1 TTTACATATAAACTATAGTTGACA
2887897 T
1 T
2887898 ATGAACTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (24 bp):
TTTACATATAAACTATAGTTGACA
Found at i:2887896 original size:18 final size:18
Alignment explanation
Indices: 2887873--2887907 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2887863 ATAGTTGACA
2887873 TTTACATATGAACTATAG
1 TTTACATATGAACTATAG
2887891 TTTACATATGAACTATA
1 TTTACATATGAACTATA
2887908 AATATATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (18 bp):
TTTACATATGAACTATAG
Found at i:2887946 original size:33 final size:34
Alignment explanation
Indices: 2887886--2887955 Score: 106
Period size: 35 Copynumber: 2.1 Consensus size: 34
2887876 ACATATGAAC
2887886 TATAGTTTACATATGAACTATAAATATATAAACTA
1 TATAGTTTACATATGAACTAT-AATATATAAACTA
* *
2887921 TATAGTTTACATATGACCTAT-ATATATATACTA
1 TATAGTTTACATATGAACTATAATATATAAACTA
2887954 TA
1 TA
2887956 GTTGATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 13 0.39
35 20 0.61
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (34 bp):
TATAGTTTACATATGAACTATAATATATAAACTA
Found at i:2887975 original size:33 final size:34
Alignment explanation
Indices: 2887938--2888041 Score: 89
Period size: 33 Copynumber: 3.2 Consensus size: 34
2887928 TACATATGAC
** *
2887938 CTATATATATATAC-TAT-AGTTGATATTTATATA
1 CTATATATATATACATATGACCT-ATATATATATA
2887971 CTATATAGT-T-TACATATGACCTATATATATATA
1 CTATATA-TATATACATATGACCTATATATATATA
*
2888004 CTATATATATATATACTAT-A--TATATATATATA
1 CTATATATATATACA-TATGACCTATATATATATA
2888036 -TATATA
1 CTATATA
2888042 AACTATATAG
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
31 6 0.10
32 16 0.26
33 29 0.48
34 7 0.11
35 3 0.05
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (34 bp):
CTATATATATATACATATGACCTATATATATATA
Found at i:2888187 original size:2 final size:2
Alignment explanation
Indices: 2887992--2888170 Score: 111
Period size: 2 Copynumber: 86.0 Consensus size: 2
2887982 ACATATGACC
2887992 TA TA TA TA TA TA CTA TA TA TA TA TA TA CTA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * *
2888036 TA TA TA AA CTA TA TA GTA TA -A TT TA CA TA TGA -A CTA TA TA TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA T-A TA -TA TA TA TA
* * * * *
2888078 -A AA CCA AA TA AA CTA TA TA CTA TA GT- TGA TA TT TA TA TA CTA
1 TA TA -TA TA TA TA -TA TA TA -TA TA -TA T-A TA TA TA TA TA -TA
2888120 TA TA -A TA TA TA CTA TA T- TA TA TA TA -A CTA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
2888161 TA TA TA TA TA
1 TA TA TA TA TA
2888171 GTTCATTAGT
Statistics
Matches: 143, Mismatches: 13, Indels: 42
0.72 0.07 0.21
Matches are distributed among these distances:
1 7 0.05
2 116 0.81
3 20 0.14
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:2888200 original size:18 final size:18
Alignment explanation
Indices: 2888177--2888330 Score: 71
Period size: 18 Copynumber: 9.1 Consensus size: 18
2888167 TATAGTTCAT
2888177 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
**
2888195 TAGTATAGGTAAACTATA
1 TAGTATATATAAACTATA
**
2888213 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
* *
2888228 TTGTATATATAACCTATA
1 TAGTATATATAAACTATA
**
2888246 TAG--TATATGGAC--TA
1 TAGTATATATAAACTATA
* *
2888260 TGGTATATACAAACTATA
1 TAGTATATATAAACTATA
**
2888278 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
* *
2888293 TACTATATATAAATTATA
1 TAGTATATATAAACTATA
*
2888311 TAGCATATATAAACTATA
1 TAGTATATATAAACTATA
2888329 TA
1 TA
2888331 TTGAAAAATT
Statistics
Matches: 97, Mismatches: 25, Indels: 28
0.65 0.17 0.19
Matches are distributed among these distances:
14 4 0.04
15 7 0.07
16 25 0.26
17 16 0.16
18 45 0.46
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:2888311 original size:33 final size:33
Alignment explanation
Indices: 2888195--2888312 Score: 114
Period size: 33 Copynumber: 3.6 Consensus size: 33
2888185 ATAAACTATA
**
2888195 TAGTATAGGTAAACTATATATTATATAGTTCAT
1 TAGTATATATAAACTATATATTATATAGTTCAT
* * * **
2888228 TTGTATATATAACCTATATAGTATAT-GGAC-T
1 TAGTATATATAAACTATATATTATATAGTTCAT
* *
2888259 ATGGTATATACAAACTATATATTATATAGTTCAT
1 -TAGTATATATAAACTATATATTATATAGTTCAT
* *
2888293 TACTATATATAAATTATATA
1 TAGTATATATAAACTATATA
2888313 GCATATATAA
Statistics
Matches: 65, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
31 1 0.02
32 24 0.37
33 39 0.60
34 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (33 bp):
TAGTATATATAAACTATATATTATATAGTTCAT
Found at i:2888367 original size:22 final size:24
Alignment explanation
Indices: 2888342--2888395 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
2888332 TGAAAAATTC
*
2888342 ATTAATA-TATTATAA-CCTATAT
1 ATTAATATTATTATAAGCATATAT
2888364 ATTAATTTATTATTATAAGCATATAT
1 ATTAA--TATTATTATAAGCATATAT
2888390 ATTAAT
1 ATTAAT
2888396 TGGAAGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 5 0.19
24 3 0.11
25 8 0.30
26 11 0.41
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTAATATTATTATAAGCATATAT
Found at i:2888893 original size:113 final size:111
Alignment explanation
Indices: 2888695--2888988 Score: 385
Period size: 112 Copynumber: 2.6 Consensus size: 111
2888685 AAATCAATCG
* * *
2888695 TGTTCTTCATTTGTTCATCCAGTTCATCCCCAAAAGCC-TCATTTGATCTTCAAAAACACCTAAA
1 TGTTCTTCATTTGTTCATCAAGTTCTTCCCCAAAACCCTTC-TTTGATCTTCAAAAACACCTAAA
2888759 CCAAAACATTTTCACATTTTTTTTAAATCAAACACCCAAAT-TTCTTCTA
65 -CAAAACATTTTCACA--TTTTTTAAATCAAACACCCAAATATTCTTCTA
* * * *
2888808 TGTTCTTCATTTGTTCTTCAAGTTCTTCTCCAAAACCCTTCTTTGATATTCACAAACACCTAAAC
1 TGTTCTTCATTTGTTCATCAAGTTCTTCCCCAAAACCCTTCTTTGATCTTCAAAAACACCTAAAC
*** ** *
2888873 ATAAACATTTTCGTGTTTTTTCGATCAAACACCCAAATATTCTTCTG
66 A-AAACATTTTCACATTTTTTAAATCAAACACCCAAATATTCTTCTA
** *
2888920 TGTTCTTCATTTGTTCATCAAGTTCTTCCCCAAAACCCTAATTTAATCTTCAAAAACACCTAAAC
1 TGTTCTTCATTTGTTCATCAAGTTCTTCCCCAAAACCCTTCTTTGATCTTCAAAAACACCTAAAC
2888985 AAAA
66 AAAA
2888989 ACCATATCAT
Statistics
Matches: 158, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
111 24 0.15
112 68 0.43
113 64 0.41
114 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (111 bp):
TGTTCTTCATTTGTTCATCAAGTTCTTCCCCAAAACCCTTCTTTGATCTTCAAAAACACCTAAAC
AAAACATTTTCACATTTTTTAAATCAAACACCCAAATATTCTTCTA
Found at i:2888947 original size:112 final size:110
Alignment explanation
Indices: 2888694--2889020 Score: 406
Period size: 113 Copynumber: 2.9 Consensus size: 110
2888684 AAAATCAATC
* * *
2888694 GTGTTCTTCATTTGTTCATCCAGTTCATCCCCAAAAGCC-TCATTTGATCTTCAAAAACACCTAA
1 GTGTTCTTCATTTGTTCATCAAGTTCTTCCCCAAAACCCTTC-TTTGATCTTCAAAAACACCTAA
* **
2888758 ACCAAAACATTTTCACATTTTTTTTAAATCAAACACCCAAATTTCTTCT
65 A-CAAAACATTTT--CATGTTTTTTCGATCAAACACCCAAATTTCTTCT
* * * * *
2888807 ATGTTCTTCATTTGTTCTTCAAGTTCTTCTCCAAAACCCTTCTTTGATATTCACAAACACCTAAA
1 GTGTTCTTCATTTGTTCATCAAGTTCTTCCCCAAAACCCTTCTTTGATCTTCAAAAACACCTAAA
*
2888872 CATAAACATTTTCGTGTTTTTTCGATCAAACACCCAAATATTCTTCT
66 CA-AAACATTTTCATGTTTTTTCGATCAAACACCCAAAT-TTCTTCT
** *
2888919 GTGTTCTTCATTTGTTCATCAAGTTCTTCCCCAAAACCCTAATTTAATCTTCAAAAACACCTAAA
1 GTGTTCTTCATTTGTTCATCAAGTTCTTCCCCAAAACCCTTCTTTGATCTTCAAAAACACCTAAA
* *
2888984 CAAAAACCA-TATCATGTATATTTCGATCAAACACCCA
66 C-AAAA-CATTTTCATGT-TTTTTCGATCAAACACCCA
2889021 TAAAATCATC
Statistics
Matches: 185, Mismatches: 23, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
111 23 0.12
112 76 0.41
113 84 0.45
114 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (110 bp):
GTGTTCTTCATTTGTTCATCAAGTTCTTCCCCAAAACCCTTCTTTGATCTTCAAAAACACCTAAA
CAAAACATTTTCATGTTTTTTCGATCAAACACCCAAATTTCTTCT
Found at i:2889185 original size:11 final size:11
Alignment explanation
Indices: 2889167--2889207 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
2889157 CCTTAACTAG
2889167 ACCCTAAACCA
1 ACCCTAAACCA
*
2889178 AGCCTAAACCA
1 ACCCTAAACCA
*
2889189 ACCCTAACCCA
1 ACCCTAAACCA
2889200 GACCCTAA
1 -ACCCTAA
2889208 CCCTCTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 19 0.73
12 7 0.27
ACGTcount: A:0.41, C:0.44, G:0.05, T:0.10
Consensus pattern (11 bp):
ACCCTAAACCA
Found at i:2889264 original size:73 final size:73
Alignment explanation
Indices: 2889183--2889340 Score: 262
Period size: 73 Copynumber: 2.2 Consensus size: 73
2889173 AACCAAGCCT
* * * *
2889183 AAACCAACCCTAACCCAGACCCTAACCCTCTCAAACACGAACCCAAATCGAAACAGAGCCCAAAC
1 AAACCAACCCTAACCCAGACCCTAACCCTCCCAAACACAAACCCAAATCAAAACAGAACCCAAAC
2889248 ACGAACCC
66 ACGAACCC
*
2889256 AAACCAACCCTAACCCAGACCCTAACCCTCCCAAACACAAACCCAAATCAAAACAGAACCCTAAC
1 AAACCAACCCTAACCCAGACCCTAACCCTCCCAAACACAAACCCAAATCAAAACAGAACCCAAAC
*
2889321 ATGAACCC
66 ACGAACCC
2889329 AAACCAACCCTA
1 AAACCAACCCTA
2889341 GCCTATACCC
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 79 1.00
ACGTcount: A:0.44, C:0.42, G:0.06, T:0.08
Consensus pattern (73 bp):
AAACCAACCCTAACCCAGACCCTAACCCTCCCAAACACAAACCCAAATCAAAACAGAACCCAAAC
ACGAACCC
Found at i:2889299 original size:22 final size:22
Alignment explanation
Indices: 2889241--2889302 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
2889231 CGAAACAGAG
*
2889241 CCCAAACACGAACCCAAACCAA
1 CCCAAACACAAACCCAAACCAA
* * * * **
2889263 CCCTAACCCAGACCCTAACCCT
1 CCCAAACACAAACCCAAACCAA
2889285 CCCAAACACAAACCCAAA
1 CCCAAACACAAACCCAAA
2889303 TCAAAACAGA
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.44, C:0.48, G:0.03, T:0.05
Consensus pattern (22 bp):
CCCAAACACAAACCCAAACCAA
Found at i:2889370 original size:20 final size:20
Alignment explanation
Indices: 2889342--2889408 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
2889332 CCAACCCTAG
* *
2889342 CCTATACCCCAGACCCAAAA
1 CCTAAACCCCAAACCCAAAA
*
2889362 CCTAAACCCCAAACCCTAAA
1 CCTAAACCCCAAACCCAAAA
** * *
2889382 CACTAAATTCTAAACCCTAAA
1 C-CTAAACCCCAAACCCAAAA
2889403 CCTAAA
1 CCTAAA
2889409 ACCTAAACTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
20 23 0.57
21 17 0.43
ACGTcount: A:0.45, C:0.39, G:0.01, T:0.15
Consensus pattern (20 bp):
CCTAAACCCCAAACCCAAAA
Found at i:2889387 original size:7 final size:7
Alignment explanation
Indices: 2889362--2889416 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
2889352 AGACCCAAAA
2889362 CCTAAAC
1 CCTAAAC
*
2889369 CCCAAAC
1 CCTAAAC
2889376 CCTAAAC
1 CCTAAAC
* *
2889383 ACTAAAT
1 CCTAAAC
*
2889390 TCTAAAC
1 CCTAAAC
2889397 CCTAAA-
1 CCTAAAC
*
2889403 CCTAAAA
1 CCTAAAC
2889410 CCTAAAC
1 CCTAAAC
2889417 TATTCGAAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
6 6 0.15
7 33 0.85
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
CCTAAAC
Found at i:2889410 original size:14 final size:13
Alignment explanation
Indices: 2889354--2889416 Score: 63
Period size: 14 Copynumber: 4.7 Consensus size: 13
2889344 TATACCCCAG
*
2889354 ACCCAAAACCTAA
1 ACCCTAAACCTAA
*
2889367 ACCCCAAACCCTAA
1 ACCCTAAA-CCTAA
* *
2889381 ACACTAAATTCTAA
1 ACCCTAAA-CCTAA
2889395 ACCCTAAACCTAA
1 ACCCTAAACCTAA
*
2889408 AACCTAAAC
1 ACCCTAAAC
2889417 TATTCGAAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
13 19 0.46
14 22 0.54
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (13 bp):
ACCCTAAACCTAA
Found at i:2889697 original size:36 final size:36
Alignment explanation
Indices: 2889638--2889707 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
2889628 TATATGTTTG
* *
2889638 ATATATATATACATACTGTTTTATTGTTGTTGATAT
1 ATATATATATACATACTGGTTTATTATTGTTGATAT
* *
2889674 ATATATATATATATGCTGGTTTATTATTGTTGAT
1 ATATATATATACATACTGGTTTATTATTGTTGAT
2889708 GTAAATGATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.53
Consensus pattern (36 bp):
ATATATATATACATACTGGTTTATTATTGTTGATAT
Found at i:2889727 original size:31 final size:31
Alignment explanation
Indices: 2889689--2890176 Score: 622
Period size: 31 Copynumber: 15.8 Consensus size: 31
2889679 TATATATATG
*
2889689 CTGGTTTATTATTGTTGATGTAAATGATGTA
1 CTGGTTTATTGTTGTTGATGTAAATGATGTA
*
2889720 CTGGTTTATTGCTGTTGATGTAAATGATGTA
1 CTGGTTTATTGTTGTTGATGTAAATGATGTA
* *
2889751 TTGGTTTATTGCTGTTGATGTAAATGATGTA
1 CTGGTTTATTGTTGTTGATGTAAATGATGTA
*
2889782 CTGGTTTATTGCTGTTGATGTAAATGATGTA
1 CTGGTTTATTGTTGTTGATGTAAATGATGTA
* * *
2889813 CTAGTTTATTGTTGTTGATGTTAATTATGTA
1 CTGGTTTATTGTTGTTGATGTAAATGATGTA
* *
2889844 CTGGTTTATTGTTGTTGATGTTAATTATGTA
1 CTGGTTTATTGTTGTTGATGTAAATGATGTA
*
2889875 TTGGTTTATTGTTGTTGATGTAAATGATGTA
1 CTGGTTTATTGTTGTTGATGTAAATGATGTA
* *
2889906 TTGGTTTATTGTTGTTGATGTAAATTATGTA
1 CTGGTTTATTGTTGTTGATGTAAATGATGTA
* *
2889937 CTGGTTTATTGCTGTTGATGTACATGATGTA
1 CTGGTTTATTGTTGTTGATGTAAATGATGTA
* * *
2889968 CTGATTTATTGTTGTTGATGTTAATTATGTA
1 CTGGTTTATTGTTGTTGATGTAAATGATGTA
** * *
2889999 -TATTTTATT-TCTGTTGATGTTAATTATGTA
1 CTGGTTTATTGT-TGTTGATGTAAATGATGTA
** * * *
2890029 CTATTTTATT-TCTGGTGATGTTAATTATGTA
1 CTGGTTTATTGT-TGTTGATGTAAATGATGTA
* *
2890060 CTGGTTTATTGCTGTTAATGTAAATGATGTA
1 CTGGTTTATTGTTGTTGATGTAAATGATGTA
* * *
2890091 TTGGTTTATTGCTATTGATGTAAATGATGTA
1 CTGGTTTATTGTTGTTGATGTAAATGATGTA
* *
2890122 CTGGTTTATTGTTGTTGATGTTAATTATGTA
1 CTGGTTTATTGTTGTTGATGTAAATGATGTA
*
2890153 CTGGTTTATTGCTGTTGATGTAAA
1 CTGGTTTATTGTTGTTGATGTAAA
2890177 CTAACCATGT
Statistics
Matches: 412, Mismatches: 42, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
29 1 0.00
30 26 0.06
31 385 0.93
ACGTcount: A:0.23, C:0.04, G:0.22, T:0.51
Consensus pattern (31 bp):
CTGGTTTATTGTTGTTGATGTAAATGATGTA
Found at i:2892547 original size:20 final size:20
Alignment explanation
Indices: 2892519--2892586 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
2892509 TTGATTCTGC
2892519 TTGCTTCTGTTTTATATTGT
1 TTGCTTCTGTTTTATATTGT
*
2892539 TTTCTTCTGTTTTATATTGT
1 TTGCTTCTGTTTTATATTGT
* * **
2892559 TTGCTTATGTTTGATATTAC
1 TTGCTTCTGTTTTATATTGT
2892579 TTGCTTCT
1 TTGCTTCT
2892587 ACTTGATATT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.12, C:0.12, G:0.13, T:0.63
Consensus pattern (20 bp):
TTGCTTCTGTTTTATATTGT
Found at i:2893507 original size:17 final size:17
Alignment explanation
Indices: 2893482--2893520 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
2893472 AAAGAGTAAT
*
2893482 CATATTAATTTAATTAC
1 CATAATAATTTAATTAC
*
2893499 CATAATAATTTAATTAT
1 CATAATAATTTAATTAC
2893516 CATAA
1 CATAA
2893521 GTTTATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (17 bp):
CATAATAATTTAATTAC
Found at i:2899918 original size:13 final size:13
Alignment explanation
Indices: 2899896--2899926 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2899886 TCTTATATTC
*
2899896 TAAAATTAATAAT
1 TAAAACTAATAAT
2899909 TAAAACTAATAAT
1 TAAAACTAATAAT
2899922 TAAAA
1 TAAAA
2899927 TTGAAAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAACTAATAAT
Found at i:2899924 original size:20 final size:21
Alignment explanation
Indices: 2899895--2899946 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
2899885 ATCTTATATT
2899895 CTAA-AATTAATAATT-AAAA
1 CTAATAATTAATAATTGAAAA
2899914 CTAATAATTAA-AATTGAAAA
1 CTAATAATTAATAATTGAAAA
*
2899934 GTAATAA-TAATAA
1 CTAATAATTAATAA
2899947 ATTTATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (21 bp):
CTAATAATTAATAATTGAAAA
Found at i:2902508 original size:40 final size:40
Alignment explanation
Indices: 2902453--2902602 Score: 255
Period size: 40 Copynumber: 3.8 Consensus size: 40
2902443 ACCGTAGTGC
*
2902453 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
2902493 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
2902533 TACACATAAGGTCGTGCCCACCATATACACCGAAATGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
2902573 TACAAATAAGGTTGTGCCCACCATATACAC
1 TACACATAAGGTCGTGCCCACCATATACAC
2902603 TTAGTGTCCT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:2906799 original size:13 final size:13
Alignment explanation
Indices: 2906777--2906807 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2906767 TCTTATATTC
*
2906777 TAAAATTAATAAT
1 TAAAACTAATAAT
2906790 TAAAACTAATAAT
1 TAAAACTAATAAT
2906803 TAAAA
1 TAAAA
2906808 TTGAAAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAACTAATAAT
Found at i:2909359 original size:40 final size:40
Alignment explanation
Indices: 2909315--2909462 Score: 233
Period size: 40 Copynumber: 3.7 Consensus size: 40
2909305 ACCGTAGTGC
* *
2909315 TACACATAAGATCGTGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
2909355 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
2909395 TACACATAAGGTCGTGCCCACCATATACACCGAAATATAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
2909435 TACAAATAAGGTTGTGCCCACCATATAC
1 TACACATAAGGTCGTGCCCACCATATAC
2909463 TTAGTGTCCT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:2909809 original size:24 final size:24
Alignment explanation
Indices: 2909777--2909825 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
2909767 AGTCTTCCTG
*
2909777 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATATAC
2909801 ATGATGTATAAAACATCTATATAC
1 ATGATGTATAAAACATCTATATAC
2909825 A
1 A
2909826 ATGTCATGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATATAC
Found at i:2910402 original size:30 final size:31
Alignment explanation
Indices: 2910346--2910403 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
2910336 AACCACTCCA
* * *
2910346 AACTTTTCCAAAATTACCGAATTGGTCCCCT
1 AACTTTTCAAAAATTACCAAAATGGTCCCCT
2910377 AACTTTTCAAAAATTA-CAAAATGGTCC
1 AACTTTTCAAAAATTACCAAAATGGTCC
2910404 TCAAATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (31 bp):
AACTTTTCAAAAATTACCAAAATGGTCCCCT
Found at i:2910414 original size:30 final size:31
Alignment explanation
Indices: 2910343--2910414 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 31
2910333 TACAACCACT
* * *
2910343 CCAAACTTTTCCAAAATTACCGAATTGGTCC
1 CCAAACTTTTCAAAAATTACCAAAATGGTCC
*
2910374 CCTAACTTTTCAAAAATTA-CAAAATGGTCC
1 CCAAACTTTTCAAAAATTACCAAAATGGTCC
* *
2910404 TCAAATTTTTC
1 CCAAACTTTTC
2910415 TAAGGCATGT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 17 0.50
31 17 0.50
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (31 bp):
CCAAACTTTTCAAAAATTACCAAAATGGTCC
Found at i:2911191 original size:90 final size:89
Alignment explanation
Indices: 2911033--2911212 Score: 324
Period size: 90 Copynumber: 2.0 Consensus size: 89
2911023 CCTAACTCAC
2911033 CCTTTTATAACCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATAACCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
* *
2911098 TTTAATTAATTGGAATTTAATAAT
66 TTTAATTAATTGAAATTAAATAAT
*
2911122 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAACCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTAT
2911187 ATTTAATTAATTGAAATTAAATAAT
65 ATTTAATTAATTGAAATTAAATAAT
2911212 C
1 C
2911213 AGGATTATTA
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
89 34 0.39
90 53 0.61
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (89 bp):
CCTTTTATAACCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTGAAATTAAATAAT
Found at i:2913499 original size:23 final size:23
Alignment explanation
Indices: 2913454--2913499 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2913444 TTATACCTAT
*
2913454 AGATACTTATTTCATATGTTATA
1 AGATACTTATTTCATATGATATA
*
2913477 AGATAGTTATTTTCATAT-ATATA
1 AGATACTTA-TTTCATATGATATA
2913500 TATATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (23 bp):
AGATACTTATTTCATATGATATA
Found at i:2916742 original size:199 final size:199
Alignment explanation
Indices: 2916402--2916797 Score: 792
Period size: 199 Copynumber: 2.0 Consensus size: 199
2916392 CAGTTGGTTC
2916402 AACCAAAATCCATACTTGGTTTACTGACATGGAATCCATCTCATATCTCATGGTTTCAAGCCATT
1 AACCAAAATCCATACTTGGTTTACTGACATGGAATCCATCTCATATCTCATGGTTTCAAGCCATT
2916467 TCTCAGAGTTTGGGCTAGACACTGCCTCTTGATAAGTCCTGGGCTCATCTTGATCCATAAGAAGA
66 TCTCAGAGTTTGGGCTAGACACTGCCTCTTGATAAGTCCTGGGCTCATCTTGATCCATAAGAAGA
2916532 ACTTCTCCATGTGTCGTAATGAGAAATCCAAATCTCTTAGGTGCATGATGTTCTATTGTGGATCT
131 ACTTCTCCATGTGTCGTAATGAGAAATCCAAATCTCTTAGGTGCATGATGTTCTATTGTGGATCT
2916597 ACTA
196 ACTA
2916601 AACCAAAATCCATACTTGGTTTACTGACATGGAATCCATCTCATATCTCATGGTTTCAAGCCATT
1 AACCAAAATCCATACTTGGTTTACTGACATGGAATCCATCTCATATCTCATGGTTTCAAGCCATT
2916666 TCTCAGAGTTTGGGCTAGACACTGCCTCTTGATAAGTCCTGGGCTCATCTTGATCCATAAGAAGA
66 TCTCAGAGTTTGGGCTAGACACTGCCTCTTGATAAGTCCTGGGCTCATCTTGATCCATAAGAAGA
2916731 ACTTCTCCATGTGTCGTAATGAGAAATCCAAATCTCTTAGGTGCATGATGTTCTATTGTGGATCT
131 ACTTCTCCATGTGTCGTAATGAGAAATCCAAATCTCTTAGGTGCATGATGTTCTATTGTGGATCT
2916796 AC
196 AC
2916798 GTAGTGACTG
Statistics
Matches: 197, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
199 197 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (199 bp):
AACCAAAATCCATACTTGGTTTACTGACATGGAATCCATCTCATATCTCATGGTTTCAAGCCATT
TCTCAGAGTTTGGGCTAGACACTGCCTCTTGATAAGTCCTGGGCTCATCTTGATCCATAAGAAGA
ACTTCTCCATGTGTCGTAATGAGAAATCCAAATCTCTTAGGTGCATGATGTTCTATTGTGGATCT
ACTA
Found at i:2920969 original size:10 final size:9
Alignment explanation
Indices: 2920934--2921062 Score: 114
Period size: 10 Copynumber: 13.3 Consensus size: 9
2920924 AGGGCTGGAA
2920934 ACCGGTTTG
1 ACCGGTTTG
* *
2920943 ACCAGTTTTCA
1 ACC-GGTTT-G
2920954 ACCGGTTCTG
1 ACCGGTT-TG
2920964 ACCGGTTTG
1 ACCGGTTTG
*
2920973 TCCGGTTTCG
1 ACCGGTTT-G
2920983 ACCGGTTCTG
1 ACCGGTT-TG
2920993 ACCGGTTTG
1 ACCGGTTTG
2921002 ACCGGTTTCG
1 ACCGGTTT-G
*
2921012 ACCGGTTCTA
1 ACCGGTT-TG
*
2921022 ACCGGTTTCA
1 ACCGGTTT-G
*
2921032 ACCGGTTCG
1 ACCGGTTTG
2921041 AACCGGTTTG
1 -ACCGGTTTG
*
2921051 ACCGGTCTG
1 ACCGGTTTG
2921060 ACC
1 ACC
2921063 CGACCCGACT
Statistics
Matches: 100, Mismatches: 11, Indels: 18
0.78 0.09 0.14
Matches are distributed among these distances:
9 34 0.34
10 60 0.60
11 6 0.06
ACGTcount: A:0.14, C:0.29, G:0.27, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:2920979 original size:19 final size:19
Alignment explanation
Indices: 2920954--2921062 Score: 118
Period size: 19 Copynumber: 5.7 Consensus size: 19
2920944 CCAGTTTTCA
2920954 ACCGGTTCTGACCGGTTTG
1 ACCGGTTCTGACCGGTTTG
*
2920973 TCCGGTT-TCGACCGGTTCTG
1 ACCGGTTCT-GACCGGTT-TG
2920993 ACCGGTT-TGACCGGTTTCG
1 ACCGGTTCTGACCGGTTT-G
* *
2921012 ACCGGTTCTAACCGGTTTCA
1 ACCGGTTCTGACCGGTTT-G
2921032 ACCGGTTC-GAACCGGTTTG
1 ACCGGTTCTG-ACCGGTTTG
2921051 ACCGG-TCTGACC
1 ACCGGTTCTGACC
2921063 CGACCCGACT
Statistics
Matches: 78, Mismatches: 6, Indels: 13
0.80 0.06 0.13
Matches are distributed among these distances:
18 7 0.09
19 36 0.46
20 35 0.45
ACGTcount: A:0.13, C:0.29, G:0.28, T:0.29
Consensus pattern (19 bp):
ACCGGTTCTGACCGGTTTG
Found at i:2920987 original size:29 final size:29
Alignment explanation
Indices: 2920934--2921062 Score: 163
Period size: 29 Copynumber: 4.4 Consensus size: 29
2920924 AGGGCTGGAA
* *
2920934 ACCGGTTTGACCAGTTTTCAACCGGTTCTG
1 ACCGGTTTGACC-GGTTTCGACCGGTTCTG
*
2920964 ACCGGTTTGTCCGGTTTCGACCGGTTCTG
1 ACCGGTTTGACCGGTTTCGACCGGTTCTG
*
2920993 ACCGGTTTGACCGGTTTCGACCGGTTCTA
1 ACCGGTTTGACCGGTTTCGACCGGTTCTG
*
2921022 ACCGGTTTCAACCGG-TTCGAACCGGTT-TG
1 ACCGGTTT-GACCGGTTTCG-ACCGGTTCTG
*
2921051 ACCGGTCTGACC
1 ACCGGTTTGACC
2921063 CGACCCGACT
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
28 3 0.03
29 62 0.70
30 23 0.26
ACGTcount: A:0.14, C:0.29, G:0.27, T:0.30
Consensus pattern (29 bp):
ACCGGTTTGACCGGTTTCGACCGGTTCTG
Found at i:2925756 original size:29 final size:29
Alignment explanation
Indices: 2925724--2925781 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
2925714 ATTGAGACAG
2925724 CGACGCTGGCTAGAGCTTCTAAAGGATTA
1 CGACGCTGGCTAGAGCTTCTAAAGGATTA
2925753 CGACGCTGGCTAGAGCTTCTAAAGGATTA
1 CGACGCTGGCTAGAGCTTCTAAAGGATTA
2925782 TGATTGCGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (29 bp):
CGACGCTGGCTAGAGCTTCTAAAGGATTA
Found at i:2928149 original size:20 final size:21
Alignment explanation
Indices: 2928124--2928162 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2928114 GAGGGCTGGA
*
2928124 AATCGGTT-TGACCGGTTTTC
1 AATCGGTTCTAACCGGTTTTC
2928144 AATCGGTTCTAACCGGTTT
1 AATCGGTTCTAACCGGTTT
2928163 GACCGGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (21 bp):
AATCGGTTCTAACCGGTTTTC
Found at i:2928176 original size:10 final size:9
Alignment explanation
Indices: 2928127--2928204 Score: 57
Period size: 10 Copynumber: 8.1 Consensus size: 9
2928117 GGCTGGAAAT
2928127 CGGTTTGAC
1 CGGTTTGAC
* *
2928136 CGGTTTTCAAT
1 CGG-TTT-GAC
*
2928147 CGGTTCTAAC
1 CGGTT-TGAC
2928157 CGGTTTGAC
1 CGGTTTGAC
2928166 CGGTTTCGAC
1 CGGTTT-GAC
*
2928176 CAGTTTGAAC
1 CGGTTTG-AC
*
2928186 CGATTTGAC
1 CGGTTTGAC
*
2928195 CGGTCTGAC
1 CGGTTTGAC
2928204 C
1 C
2928205 CGACCCGACC
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
9 23 0.42
10 27 0.49
11 5 0.09
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.32
Consensus pattern (9 bp):
CGGTTTGAC
Found at i:2928187 original size:29 final size:29
Alignment explanation
Indices: 2928127--2928198 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
2928117 GGCTGGAAAT
* *
2928127 CGGTTTGACCGGTTTTCAATCGGTTCTAAC
1 CGGTTTGACCGG-TTTCAACCAGTTCTAAC
*
2928157 CGGTTTGACCGGTTTCGACCAGTT-TGAAC
1 CGGTTTGACCGGTTTCAACCAGTTCT-AAC
*
2928186 CGATTTGACCGGT
1 CGGTTTGACCGGT
2928199 CTGACCCGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 1 0.03
29 24 0.65
30 12 0.32
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (29 bp):
CGGTTTGACCGGTTTCAACCAGTTCTAAC
Found at i:2928214 original size:19 final size:18
Alignment explanation
Indices: 2928192--2928249 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 18
2928182 GAACCGATTT
2928192 GACCGGTCTGACCCGACCC
1 GACC-GTCTGACCCGACCC
**
2928211 GACCCAACTGACCCGACCC
1 GA-CCGTCTGACCCGACCC
2928230 GACCGT-TGACCCGACCC
1 GACCGTCTGACCCGACCC
2928247 GAC
1 GAC
2928250 TGTTGACCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 14 0.41
18 2 0.06
19 16 0.47
20 2 0.06
ACGTcount: A:0.21, C:0.48, G:0.22, T:0.09
Consensus pattern (18 bp):
GACCGTCTGACCCGACCC
Found at i:2928241 original size:17 final size:17
Alignment explanation
Indices: 2928200--2928257 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
2928190 TTGACCGGTC
**
2928200 TGACCCGACCCGACCCAAC
1 TGACCCGACCCGA-CC-GT
2928219 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
*
2928236 TGACCCGACCCGACTGT
1 TGACCCGACCCGACCGT
2928253 TGACC
1 TGACC
2928258 GTTGACCGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
17 21 0.58
18 2 0.06
19 13 0.36
ACGTcount: A:0.21, C:0.47, G:0.21, T:0.12
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:2928263 original size:7 final size:7
Alignment explanation
Indices: 2928251--2928283 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
2928241 CGACCCGACT
2928251 GTTGACC
1 GTTGACC
2928258 GTTGACC
1 GTTGACC
2928265 G-TGACC
1 GTTGACC
2928271 GTTGACC
1 GTTGACC
2928278 GTTGAC
1 GTTGAC
2928284 TTCCTTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.15, C:0.27, G:0.30, T:0.27
Consensus pattern (7 bp):
GTTGACC
Found at i:2928271 original size:13 final size:13
Alignment explanation
Indices: 2928253--2928279 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2928243 ACCCGACTGT
2928253 TGACCGTTGACCG
1 TGACCGTTGACCG
2928266 TGACCGTTGACCG
1 TGACCGTTGACCG
2928279 T
1 T
2928280 TGACTTCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.26
Consensus pattern (13 bp):
TGACCGTTGACCG
Found at i:2928315 original size:22 final size:22
Alignment explanation
Indices: 2928287--2928336 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
2928277 CGTTGACTTC
2928287 CTTTGATCAAAACCTAAAATGG
1 CTTTGATCAAAACCTAAAATGG
2928309 CTTTGATCAAAACCTAAAATGG
1 CTTTGATCAAAACCTAAAATGG
2928331 CTTTGA
1 CTTTGA
2928337 CCGACACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (22 bp):
CTTTGATCAAAACCTAAAATGG
Found at i:2930443 original size:90 final size:90
Alignment explanation
Indices: 2930290--2930464 Score: 289
Period size: 90 Copynumber: 1.9 Consensus size: 90
2930280 AACACACCCA
*
2930290 TTTATAGTCAAGTTACCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTATATT
1 TTTATAGTCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATT
* *
2930355 TAATTAATTGGAATTTAATAATCCT
66 TAATTAATTGAAATTAAATAATCCT
* *
2930380 TTTATA-TCCAAGTTTCCCTAATCATATTATGGATTTTATTATTTCAAATTAATTAAATCTATAT
1 TTTATAGT-CAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
2930444 TTAATTAATTGAAATTAAATA
65 TTAATTAATTGAAATTAAATA
2930465 TTCAGGATTA
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 1 0.01
90 78 0.99
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (90 bp):
TTTATAGTCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATT
TAATTAATTGAAATTAAATAATCCT
Found at i:2933779 original size:2 final size:2
Alignment explanation
Indices: 2933774--2933819 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
2933764 CCACAAATGA
*
2933774 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2933816 AT AT
1 AT AT
2933820 TAATCATCCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2933868 original size:6 final size:6
Alignment explanation
Indices: 2933848--2933977 Score: 77
Period size: 6 Copynumber: 20.3 Consensus size: 6
2933838 TTTTCTCTCT
* * *
2933848 TTTTTC CTTTT- TTTTTC TTTTAT- TTTTTCC TCTTCC TTTTCTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTT-TC TTTTT-C TTTTTC TTTT-TC TTTTTC
* *
2933897 TTATTTTC TTTTTGT TTTCTTC TTTTTC TTTTTC TTCTTTC TTTTT- GTTTTC
1 -T-TTTTC TTTTT-C TTT-TTC TTTTTC TTTTTC TT-TTTC TTTTTC TTTTTC
* *
2933949 TTCTTTTA TTTTTC TGTTTTC TTCTTC TT
1 -T-TTTTC TTTTTC T-TTTTC TTTTTC TT
2933978 CTATTTCTTT
Statistics
Matches: 97, Mismatches: 13, Indels: 28
0.70 0.09 0.20
Matches are distributed among these distances:
5 9 0.09
6 47 0.48
7 30 0.31
8 11 0.11
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:2933875 original size:14 final size:13
Alignment explanation
Indices: 2933855--2933968 Score: 75
Period size: 14 Copynumber: 8.2 Consensus size: 13
2933845 TCTTTTTTCC
2933855 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
* * *
2933868 TATTTTTTCCTCT
1 TTTTTTTTTCTTT
** *
2933881 TCCTTTTCTCTTT
1 TTTTTTTTTCTTT
*
2933894 TTCTTATTTTCTTT
1 TT-TTTTTTTCTTT
*
2933908 TTGTTTTCTTCTTT
1 TT-TTTTTTTCTTT
2933922 TTCTTTTTCTTCTTT
1 TT-TTTTT-TTCTTT
2933937 CTTTTTGTTTTCTTCT
1 -TTTTT-TTTTCTT-T
*
2933953 TTTATTTTTCTGTT
1 TTTTTTTTTCT-TT
2933967 TT
1 TT
2933969 CTTCTTCTTC
Statistics
Matches: 77, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
13 19 0.25
14 34 0.44
15 19 0.25
16 5 0.06
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTTTTTTTCTTT
Found at i:2933881 original size:33 final size:32
Alignment explanation
Indices: 2933838--2933955 Score: 94
Period size: 33 Copynumber: 3.4 Consensus size: 32
2933828 CCTTATCTTT
*
2933838 TTTTCTCTCTTTTTTCCTTTTTTTTTCTTTTATT
1 TTTTC-CTCTTTTTTCCTTTTTTTTTCTTTT-TG
2933872 TTTTCCTCTTCCTTTTCTCTTTTTCTTATTTTCTTTTTG
1 TTTTCCTCTT--TTTTC-C--TTT-TT-TTTTCTTTTTG
* *
2933911 TTTTCTTC-TTTTTCTTTTTCTTCTTTCTTTTTG
1 TTTTCCTCTTTTTTCCTTTT-TT-TTTCTTTTTG
*
2933944 TTTTCTTCTTTT
1 TTTTCCTCTTTT
2933956 ATTTTTCTGT
Statistics
Matches: 71, Mismatches: 3, Indels: 20
0.76 0.03 0.21
Matches are distributed among these distances:
32 2 0.03
33 27 0.38
34 8 0.11
35 5 0.07
36 6 0.08
38 4 0.06
39 10 0.14
40 9 0.13
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (32 bp):
TTTTCCTCTTTTTTCCTTTTTTTTTCTTTTTG
Found at i:2933916 original size:19 final size:18
Alignment explanation
Indices: 2933892--2933971 Score: 67
Period size: 21 Copynumber: 4.4 Consensus size: 18
2933882 CCTTTTCTCT
2933892 TTTTCTTATTTTCTTTTTG
1 TTTTCTT-TTTTCTTTTTG
* *
2933911 TTTTC-TTCTT-TTTCT-
1 TTTTCTTTTTTCTTTTTG
*
2933926 TTTTCTTCTTTCTTTTTG
1 TTTTCTTTTTTCTTTTTG
*
2933944 TTTTCTTCTTTTATTTTTCTG
1 TTTTCTT-TTTT-CTTTT-TG
2933965 TTTTCTT
1 TTTTCTT
2933972 CTTCTTCTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
15 5 0.10
16 7 0.15
17 7 0.15
18 8 0.17
19 8 0.17
20 4 0.08
21 9 0.19
ACGTcount: A:0.03, C:0.15, G:0.04, T:0.79
Consensus pattern (18 bp):
TTTTCTTTTTTCTTTTTG
Found at i:2933920 original size:54 final size:54
Alignment explanation
Indices: 2933857--2933984 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 54
2933847 TTTTTTCCTT
* *
2933857 TTTTTTTCTTTTAT-TTTTTCCTCTTCCTTTTCTCTTTTTCTTATTTT-CTTTT-TG
1 TTTTCTTCTTTT-TCTTTTTCCTCTTCCTTTT-T-GTTTTCTTATTTTACTTTTCTG
* * * *
2933911 TTTTCTTCTTTTTCTTTTTCTTCTTTCTTTTTGTTTTCTTCTTTTATTTTTCTG
1 TTTTCTTCTTTTTCTTTTTCCTCTTCCTTTTTGTTTTCTTATTTTACTTTTCTG
* *
2933965 TTTTCTTCTTCTTCTATTTC
1 TTTTCTTCTTTTTCTTTTTC
2933985 TTTTTTAGCT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
52 11 0.17
53 6 0.10
54 46 0.73
ACGTcount: A:0.03, C:0.19, G:0.02, T:0.76
Consensus pattern (54 bp):
TTTTCTTCTTTTTCTTTTTCCTCTTCCTTTTTGTTTTCTTATTTTACTTTTCTG
Found at i:2933953 original size:47 final size:47
Alignment explanation
Indices: 2933889--2933989 Score: 111
Period size: 47 Copynumber: 2.1 Consensus size: 47
2933879 CTTCCTTTTC
* *
2933889 TCTTTTTCTTATTTTCTTTT-TGTTTTCT-TCTTT-TTCTTTTTCTTCTT
1 TCTTTTTCTTATTTTCTTTTAT-TTTTCTGT-TTTCTTCTTCTTC-TATT
*
2933936 TCTTTTTGTT-TTCTTCTTTTATTTTTCTGTTTTCTTCTTCTTCTATT
1 TCTTTTTCTTATT-TTCTTTTATTTTTCTGTTTTCTTCTTCTTCTATT
2933983 TCTTTTT
1 TCTTTTT
2933990 TAGCTCTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
46 2 0.04
47 35 0.74
48 10 0.21
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (47 bp):
TCTTTTTCTTATTTTCTTTTATTTTTCTGTTTTCTTCTTCTTCTATT
Found at i:2933966 original size:21 final size:20
Alignment explanation
Indices: 2933892--2933974 Score: 74
Period size: 15 Copynumber: 4.5 Consensus size: 20
2933882 CCTTTTCTCT
* *
2933892 TTTTCTTATTTTCTTTT-TG
1 TTTTCTTCTTTTTTTTTCTG
2933911 TTTTCTTC----TTTTTCT-
1 TTTTCTTCTTTTTTTTTCTG
*
2933926 TTTTCTTC-TTTCTTTT-TG
1 TTTTCTTCTTTTTTTTTCTG
2933944 TTTTCTTCTTTTATTTTTCTG
1 TTTTCTTCTTTT-TTTTTCTG
2933965 TTTTCTTCTT
1 TTTTCTTCTT
2933975 CTTCTATTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
15 12 0.23
16 1 0.02
17 1 0.02
18 12 0.23
19 10 0.19
20 4 0.08
21 12 0.23
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTCTTCTTTTTTTTTCTG
Found at i:2936713 original size:45 final size:45
Alignment explanation
Indices: 2936662--2936748 Score: 149
Period size: 45 Copynumber: 1.9 Consensus size: 45
2936652 AATTTCTTAT
*
2936662 CAATATACTTACCATTT-GTCCCATAAGCTCGTAGGCTTATTTTAC
1 CAATATACTTACCATTTAGT-CCATAAGCTCGTAAGCTTATTTTAC
2936707 CAATATACTTACCATTTAGTCCATAAGCTCGTAAGCTTATTT
1 CAATATACTTACCATTTAGTCCATAAGCTCGTAAGCTTATTT
2936749 GCAAGTTTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
45 38 0.95
46 2 0.05
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (45 bp):
CAATATACTTACCATTTAGTCCATAAGCTCGTAAGCTTATTTTAC
Found at i:2936924 original size:40 final size:40
Alignment explanation
Indices: 2936852--2937001 Score: 203
Period size: 40 Copynumber: 3.7 Consensus size: 40
2936842 ACCTTAGTGA
**
2936852 TACACATAAGGTCGTTGTCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCG-TACCCACCATATACACCGAAGTGTAT
2936893 TACACATAAGGTCGTACCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTACCCACCATATACACCGAAGTGTAT
** * * * *
2936933 TGTATATAAAGTCGTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTACCCACCATATACACCGAAGTGTAT
2936973 TACACATAAGGTC-TAGCCCACCATATACA
1 TACACATAAGGTCGTA-CCCACCATATACA
2937002 TTTAGTGTCC
Statistics
Matches: 95, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 80 0.84
41 14 0.15
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.25
Consensus pattern (40 bp):
TACACATAAGGTCGTACCCACCATATACACCGAAGTGTAT
Found at i:2937352 original size:24 final size:24
Alignment explanation
Indices: 2937318--2937366 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
2937308 AGTCTTCCTG
2937318 ATGATGAATAAAACATCTATGTAC
1 ATGATGAATAAAACATCTATGTAC
*
2937342 ATGATGTATAAAACATCTATGTAC
1 ATGATGAATAAAACATCTATGTAC
2937366 A
1 A
2937367 ATTTCTTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (24 bp):
ATGATGAATAAAACATCTATGTAC
Found at i:2947075 original size:23 final size:22
Alignment explanation
Indices: 2947027--2947109 Score: 84
Period size: 22 Copynumber: 3.9 Consensus size: 22
2947017 ATAGGGTAGA
*
2947027 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATTCCCCCTTGAAG
* *
2947049 GGGAATCGATTCCCCCTTTACAT
1 GGGAATCGATTCCCCCTTGA-AG
*
2947072 GGGAACCGATTCCCCC-T--AG
1 GGGAATCGATTCCCCCTTGAAG
*
2947091 GGGAATCGA-TACCCCTTGA
1 GGGAATCGATTCCCCCTTGA
2947110 GGGTTCTGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
18 5 0.10
19 10 0.20
22 19 0.38
23 16 0.32
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (22 bp):
GGGAATCGATTCCCCCTTGAAG
Found at i:2948703 original size:18 final size:18
Alignment explanation
Indices: 2948682--2948721 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
2948672 GAACAGCACA
2948682 AGGAACAAGCACGAG-CAG
1 AGGAACAAGCAC-AGCCAG
2948700 AGGAACAAGCACAGCCAG
1 AGGAACAAGCACAGCCAG
2948718 AGGA
1 AGGA
2948722 TCAAATGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.45, C:0.23, G:0.33, T:0.00
Consensus pattern (18 bp):
AGGAACAAGCACAGCCAG
Found at i:2949046 original size:17 final size:17
Alignment explanation
Indices: 2949013--2949091 Score: 63
Period size: 17 Copynumber: 4.6 Consensus size: 17
2949003 GTTTTAACAT
*
2949013 TTTGAATATTTTGGATTG
1 TTTGAAT-TTATGGATTG
2949031 TTTGAATTTATGGATTG
1 TTTGAATTTATGGATTG
* * *
2949048 ATTG-ACTT-TGAATTTG
1 TTTGAATTTATGGA-TTG
* *
2949064 TTTGGATTTATGGATGG
1 TTTGAATTTATGGATTG
*
2949081 TTTGAACTTAT
1 TTTGAATTTAT
2949092 ATTTCTATAT
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
15 3 0.06
16 9 0.19
17 26 0.54
18 10 0.21
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.52
Consensus pattern (17 bp):
TTTGAATTTATGGATTG
Found at i:2954237 original size:19 final size:19
Alignment explanation
Indices: 2954196--2954240 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
2954186 ATTAACTTGT
* ***
2954196 GGCCGCAACGCATTGTTGT
1 GGCCGCAACGCAGTGTAAC
2954215 GGCCGCAACGCAGTGTAAC
1 GGCCGCAACGCAGTGTAAC
2954234 GGCCGCA
1 GGCCGCA
2954241 TCGTAACGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.31, G:0.33, T:0.16
Consensus pattern (19 bp):
GGCCGCAACGCAGTGTAAC
Found at i:2958902 original size:31 final size:30
Alignment explanation
Indices: 2958855--2958922 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 30
2958845 TCGGATCGGG
2958855 TTTTTT-AAAAAAATCAAGATCGGGACGGA
1 TTTTTTAAAAAAAATCAAGATCGGGACGGA
* * *
2958884 TTTTTTAAAAAAATATCAAGTTCGGGTCGGG
1 TTTTTTAAAAAAA-ATCAAGATCGGGACGGA
2958915 TTTTTTAA
1 TTTTTTAA
2958923 GTGTGATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 6 0.18
30 6 0.18
31 22 0.65
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (30 bp):
TTTTTTAAAAAAAATCAAGATCGGGACGGA
Found at i:2959854 original size:22 final size:22
Alignment explanation
Indices: 2959829--2959888 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
2959819 TATATAGGCA
* ** *
2959829 TATTAAATAAATGTTATGTGTG
1 TATTAAATATATGTTACATGTC
2959851 TATTAATATATATG-TACATGTC
1 TATTAA-ATATATGTTACATGTC
2959873 TATTAAATATATGTTA
1 TATTAAATATATGTTA
2959889 GTTTTTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 7 0.22
22 19 0.59
23 6 0.19
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (22 bp):
TATTAAATATATGTTACATGTC
Found at i:2960273 original size:15 final size:16
Alignment explanation
Indices: 2960242--2960275 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2960232 TATGTATGCA
*
2960242 TATTTGTTTACTTTAT
1 TATTTATTTACTTTAT
2960258 TATTTATTTA-TTTAT
1 TATTTATTTACTTTAT
2960273 TAT
1 TAT
2960276 AATTTCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (16 bp):
TATTTATTTACTTTAT
Found at i:2960670 original size:138 final size:135
Alignment explanation
Indices: 2960512--2960923 Score: 361
Period size: 138 Copynumber: 3.0 Consensus size: 135
2960502 AAATAAAACT
* * * *
2960512 TTAAAATTTATTAGGGTTTAATATTAAAGCCTTCACCTTTAAATTAATTCCAACATATCCTTTAC
1 TTAAAATTGATTAGGATTTAATATTAAAGCCTTCA-CTTTAAATTAATTTCAAC-TATCCTTTAA
* * *
2960577 TTTAGGTGAATTTTTAATTTGGTCGTCATTTTCATGCCTGATGTTCTATTTTAATTATTTGATTC
64 TTTAGGTGAATTTTTAATTTGGTCATCATTTT-ATGCATGA-GTTCCATTTTAATTATTTGATTC
2960642 AATAAAGTG
127 AATAAAGTG
* * ** * *
2960651 -TAAAATTGATTAGGTTTTAATATTAGAGCCTTCA-TCTTAGGTTTAATTTCACCTTTGTCCTTT
1 TTAAAATTGATTAGGATTTAATATTAAAGCCTTCACT-TTA-AATTAATTTCAAC--TATCCTTT
* * *
2960714 AATTTAGGAGAATTTTTAATTTGGTCCTTGCA-TTTATGCTTGAGGTTCCATTTTAATTATTTGA
62 AATTTAGGTGAATTTTTAATTTGGT-CAT-CATTTTATGCATGA-GTTCCATTTTAATTATTTGA
**
2960778 -TCTAATAATTTG
124 TTC-AATAAAGTG
* * * * * * *
2960790 TTAAAATTGGTTA-GAATTAATAATTAGAA-CCTCCATTTTATATTCATTTCATTCTAGTCC-TT
1 TTAAAATTGATTAGGATTTAAT-ATTA-AAGCCTTCACTTTAAATTAATTTCA-ACTA-TCCTTT
* *
2960852 AAATTAGGTGAATTTTTAATTAGGTCATCACTTTTATGCATGAGATTCCATTTTAATTATTTGAT
62 AATTTAGGTGAATTTTTAATTTGGTCATCA-TTTTATGCATGAG-TTCCATTTTAATTATTTGAT
*
2960917 CCAATAA
125 TCAATAA
2960924 TTTATTAAAA
Statistics
Matches: 224, Mismatches: 33, Indels: 33
0.77 0.11 0.11
Matches are distributed among these distances:
136 3 0.01
137 6 0.03
138 101 0.45
139 81 0.36
140 29 0.13
141 4 0.02
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (135 bp):
TTAAAATTGATTAGGATTTAATATTAAAGCCTTCACTTTAAATTAATTTCAACTATCCTTTAATT
TAGGTGAATTTTTAATTTGGTCATCATTTTATGCATGAGTTCCATTTTAATTATTTGATTCAATA
AAGTG
Found at i:2960735 original size:139 final size:135
Alignment explanation
Indices: 2960569--2961062 Score: 435
Period size: 139 Copynumber: 3.6 Consensus size: 135
2960559 TTCCAACATA
* * * * *
2960569 TCCTTTACTTTAGGTGAATTTTTAATTTGGTCGTCATTTTCATGCCTGATGTTCTATTTTAATTA
1 TCCTTTAATTTAGGAGAATTTTTAATTTGGTCATCATTTT-ATGCATGA-GTTCCATTTTAATTA
** * ** *
2960634 TTTGATTCAATAAAGTGTAAAATTGATTAGGTTTTAATATTAGAGCCTTCATCTTAGGTTTAATT
64 TTTGATTCAATAATTTGTAAAATTGGTTA-GAATTAATATTAGAGCCTTCATTTTAGGTTTAATT
2960699 TCACCTTTG
128 TCA-CTTTG
* *
2960708 TCCTTTAATTTAGGAGAATTTTTAATTTGGTCCTTGCA-TTTATGCTTGAGGTTCCATTTTAATT
1 TCCTTTAATTTAGGAGAATTTTTAATTTGGT-CAT-CATTTTATGCATGA-GTTCCATTTTAATT
* *
2960772 ATTTGA-TCTAATAATTTGTTAAAATTGGTTAGAATTAATAATTAGAACCTCCATTTTA--TATT
63 ATTTGATTC-AATAATTTG-TAAAATTGGTTAGAATTAAT-ATTAGAGCCTTCATTTTAGGT-TT
*
2960834 CATTTCA-TTCTAG
124 AATTTCACTT-T-G
* * *
2960847 TCC-TTAAATTAGGTGAATTTTTAATTAGGTCATCACTTTTATGCATGAGATTCCATTTTAATTA
1 TCCTTTAATTTAGGAGAATTTTTAATTTGGTCATCA-TTTTATGCATGAG-TTCCATTTTAATTA
* * * * * *
2960911 TTTGATCCAATAATTTATTAAAATTGGTCAGAATTAATATTATAGTCTTTATTTTAGGTTTAATT
64 TTTGATTCAATAATTT-GTAAAATTGGTTAGAATTAATATTAGAGCCTTCATTTTAGGTTTAATT
* *
2960976 TTACGATTAG
128 TCAC--TTTG
* * * * ** *
2960986 TCTTTTAATTTAAGAGAATTTTTAATTTAGTCATCGTCTTTATGCACAAGGTTCCATTTCAATT-
1 TCCTTTAATTTAGGAGAATTTTTAATTTGGTCATCAT-TTTATGCATGA-GTTCCATTTTAATTA
* *
2961050 TTCGATTCTATAA
64 TTTGATTCAATAA
2961063 AATTGGTAAA
Statistics
Matches: 290, Mismatches: 44, Indels: 42
0.77 0.12 0.11
Matches are distributed among these distances:
136 2 0.01
137 18 0.06
138 91 0.31
139 96 0.33
140 78 0.27
141 5 0.02
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.47
Consensus pattern (135 bp):
TCCTTTAATTTAGGAGAATTTTTAATTTGGTCATCATTTTATGCATGAGTTCCATTTTAATTATT
TGATTCAATAATTTGTAAAATTGGTTAGAATTAATATTAGAGCCTTCATTTTAGGTTTAATTTCA
CTTTG
Found at i:2960924 original size:138 final size:137
Alignment explanation
Indices: 2960569--2960949 Score: 396
Period size: 138 Copynumber: 2.8 Consensus size: 137
2960559 TTCCAACATA
** * * *
2960569 TCCTTTACTTTAGGTGAATTTTTAATTTGGTCGTCA-TTTTCATGCCTGATGTTCTATTTTAATT
1 TCCTTTAAATTAGGTGAATTTTTAATTTGGTCATCACTTTT-ATGCATGA-GTTCCATTTTAATT
* ** * ** * *
2960633 ATTTGATTCAATAAAGTG-TAAAATTGATTAGGTTTTAAT-ATTAGAGCCTTCATCTTAGGTTTA
64 ATTTGATCCAATAATTTGTTAAAATTGGTTA-GAATTAATAATTAGAACCTCCATCTTA-GTTTA
2960696 ATTTCACCTTTG
127 ATTTCA-CTTTG
* * * ** * *
2960708 TCCTTTAATTTAGGAGAATTTTTAATTTGGTCCTTGCATTTATGCTTGAGGTTCCATTTTAATTA
1 TCCTTTAAATTAGGTGAATTTTTAATTTGGTCATCACTTTTATGCATGA-GTTCCATTTTAATTA
* * *
2960773 TTTGATCTAATAATTTGTTAAAATTGGTTAGAATTAATAATTAGAACCTCCATTTTA-TATTCAT
65 TTTGATCCAATAATTTGTTAAAATTGGTTAGAATTAATAATTAGAACCTCCATCTTAGT-TTAAT
2960837 TTCA-TTCTAG
129 TTCACTT-T-G
*
2960847 TCC-TTAAATTAGGTGAATTTTTAATTAGGTCATCACTTTTATGCATGAGATTCCATTTTAATTA
1 TCCTTTAAATTAGGTGAATTTTTAATTTGGTCATCACTTTTATGCATGAG-TTCCATTTTAATTA
* *
2960911 TTTGATCCAATAATTTATTAAAATTGGTCAGAATTAATA
65 TTTGATCCAATAATTTGTTAAAATTGGTTAGAATTAATA
2960950 TTATAGTCTT
Statistics
Matches: 204, Mismatches: 31, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
137 3 0.01
138 89 0.44
139 83 0.41
140 29 0.14
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.47
Consensus pattern (137 bp):
TCCTTTAAATTAGGTGAATTTTTAATTTGGTCATCACTTTTATGCATGAGTTCCATTTTAATTAT
TTGATCCAATAATTTGTTAAAATTGGTTAGAATTAATAATTAGAACCTCCATCTTAGTTTAATTT
CACTTTG
Found at i:2962963 original size:14 final size:16
Alignment explanation
Indices: 2962933--2962964 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
2962923 ATAAGGTAGA
2962933 AATGCACTCACCTAGT
1 AATGCACTCACCTAGT
2962949 AATGC-CTCA-CTAGT
1 AATGCACTCACCTAGT
2962963 AA
1 AA
2962965 ACCTTACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 4 0.25
16 5 0.31
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.25
Consensus pattern (16 bp):
AATGCACTCACCTAGT
Found at i:2965730 original size:50 final size:52
Alignment explanation
Indices: 2965665--2965798 Score: 137
Period size: 59 Copynumber: 2.5 Consensus size: 52
2965655 CTCCAATTTG
** * *
2965665 CCTTTTCATCGCGACTAGGATGGTT-GG-TTAGAGCCATATTATCGAGTTTT
1 CCTTTTCATTACGACTAGGAGGGTTAGGATTAGAGCCATATTATCGAGTTTA
2965715 CCTTTTCATTACGACTAGGAGGGTTTGATAGGACACTTAGAGCCATATTATCGAGTTTA
1 CCTTTTCATTACGACTAGGAGGG--T--TAGG--A-TTAGAGCCATATTATCGAGTTTA
* *
2965774 CCTTTTTAGTACGACTAGGAGGGTT
1 CCTTTTCATTACGACTAGGAGGGTT
2965799 CGATAGGACA
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
50 20 0.29
52 1 0.01
54 1 0.01
55 3 0.04
57 1 0.01
59 43 0.62
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (52 bp):
CCTTTTCATTACGACTAGGAGGGTTAGGATTAGAGCCATATTATCGAGTTTA
Found at i:2965787 original size:59 final size:59
Alignment explanation
Indices: 2965692--2965812 Score: 206
Period size: 59 Copynumber: 2.1 Consensus size: 59
2965682 GGATGGTTGG
* * *
2965692 TTAGAGCCATATTATCGAGTTTTCCTTTTCATTACGACTAGGAGGGTTTGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTACCTTTTCAGTACGACTAGGAGGGTTCGATAGGACAC
*
2965751 TTAGAGCCATATTATCGAGTTTACCTTTTTAGTACGACTAGGAGGGTTCGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTACCTTTTCAGTACGACTAGGAGGGTTCGATAGGACAC
2965810 TTA
1 TTA
2965813 TCCATCTATT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (59 bp):
TTAGAGCCATATTATCGAGTTTACCTTTTCAGTACGACTAGGAGGGTTCGATAGGACAC
Done.